Running as unit: rb-build-amd64_18-23290.service ==================================================================================== Thu Nov 21 01:29:19 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_18) on jenkins, called using "ionos5-amd64 ionos1-amd64" as arguments. Thu Nov 21 01:29:19 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-NnpszhVM" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Nov 21 01:29:19 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Thu Nov 21 01:29:19 UTC 2024 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-g2jsdL' Thu Nov 21 01:29:19 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Thu Nov 21 01:29:19 UTC 2024 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-Cemx02' ok, let's check if sra-sdk is building anywhere yet… ok, sra-sdk is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of sra-sdk in unstable on amd64 on jenkins now. 1st build will be done on ionos5-amd64.debian.net. 2nd build will be done on ionos1-amd64.debian.net. ============================================================================= Thu Nov 21 01:29:28 UTC 2024 I: starting to build sra-sdk/unstable/amd64 on jenkins on '2024-11-21 01:29' Thu Nov 21 01:29:28 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_18/23290/console.log 1732152568 amd64 unstable sra-sdk Thu Nov 21 01:29:28 UTC 2024 I: Downloading source for unstable/sra-sdk=3.0.9+dfsg-7 --2024-11-21 01:29:28-- http://deb.debian.org/debian/pool/main/s/sra-sdk/sra-sdk_3.0.9%2bdfsg-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2947 (2.9K) [text/prs.lines.tag] Saving to: ‘sra-sdk_3.0.9+dfsg-7.dsc’ 0K .. 100% 371M=0s 2024-11-21 01:29:28 (371 MB/s) - ‘sra-sdk_3.0.9+dfsg-7.dsc’ saved [2947/2947] --2024-11-21 01:29:28-- http://deb.debian.org/debian/pool/main/s/sra-sdk/sra-sdk_3.0.9%2bdfsg-7.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2947 (2.9K) [text/prs.lines.tag] Saving to: ‘sra-sdk_3.0.9+dfsg-7.dsc’ 0K .. 100% 371M=0s 2024-11-21 01:29:28 (371 MB/s) - ‘sra-sdk_3.0.9+dfsg-7.dsc’ saved [2947/2947] Thu Nov 21 01:29:28 UTC 2024 I: sra-sdk_3.0.9+dfsg-7.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: sra-sdk Binary: sra-toolkit, libngs-c++3, libngs-c++-dev, libncbi-ngs3, libncbi-ngs-dev, libngs-java, libngs-jni, libngs-java-doc, python3-ngs Architecture: amd64 arm64 all Version: 3.0.9+dfsg-7 Maintainer: Debian Med Packaging Team Uploaders: Charles Plessy , Andreas Tille , Aaron M. Ucko Homepage: https://github.com/ncbi/sra-tools/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/sra-sdk Vcs-Git: https://salsa.debian.org/med-team/sra-sdk.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, javahelper, libabsl-dev, libncbi-vdb-dev (>= 3.0.9+dfsg~), libfuse-dev, libhdf5-dev, libmagic-dev, libre2-dev, libxml2-dev, libzstd-dev, liblzma-dev, libsam-extract-dev, maven-repo-helper, python3-all, default-jdk, flex, bison Package-List: libncbi-ngs-dev deb libdevel optional arch=amd64,arm64 libncbi-ngs3 deb libs optional arch=amd64,arm64 libngs-c++-dev deb libdevel optional arch=amd64,arm64 libngs-c++3 deb libs optional arch=amd64,arm64 libngs-java deb java optional arch=amd64,arm64 libngs-java-doc deb doc optional arch=all libngs-jni deb java optional arch=amd64,arm64 python3-ngs deb python optional arch=all sra-toolkit deb science optional arch=amd64,arm64 Checksums-Sha1: 376e5faec7d5b5330ca98b7cda5dafc4b47afe2a 34555404 sra-sdk_3.0.9+dfsg.orig.tar.xz 65dce870f8a49b384cbfc17ea36e1f2298cad1ad 3791952 sra-sdk_3.0.9+dfsg-7.debian.tar.xz Checksums-Sha256: 64644c082b02294f65a554e1428dabce095f165941af0997d5106c0c74e9f28e 34555404 sra-sdk_3.0.9+dfsg.orig.tar.xz a6cf692ff10e6933ab424d774029157428d6e5e2773f5fa663ab9915de7f9cc1 3791952 sra-sdk_3.0.9+dfsg-7.debian.tar.xz Files: 3d70afe02290c05e8d09bc1097f1ae41 34555404 sra-sdk_3.0.9+dfsg.orig.tar.xz fabdd60c0ba82b8f2853866d99f1257b 3791952 sra-sdk_3.0.9+dfsg-7.debian.tar.xz Dgit: cc37c390b78414992993931f406493e8458cf80e debian archive/debian/3.0.9+dfsg-7 https://git.dgit.debian.org/sra-sdk -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEfDq5z9IwvTDdAJxZHnCRsfFKZKIFAmcR02oACgkQHnCRsfFK ZKLFEhAAjbL3YdQkXs7WQ4PzXqwFL7bb/CN7qBPCPRN6D0qzx9gI5Sbpkqj/LSBY DsofQN4pxZ4iv9cjUd9nvsabgQfmZnaY96wh9i+uh1OCjxNQRuypdqd8sC1kGZ4q ypFL/Qieavab02uiqGOKTbgnrA/It0YDfNIho5X8eJgJJaRrH0DJxoVAknCMe3FR Wz6CsGj0q3zpTtBajMlHzWH90RKtiiXk2yQgmPbaTDYCBvrFusS/UfjIREaUy0eK aLOYnLHqPkxumgxaCeYGySR9jq6UfQNcW+dLvxx6k6PAza5bPkw42dRj9FB3SDgU 3m83K6dVb56RO1n9a2CsPjeobbUq87eGZIlYA+KYi8ojWyNaXrXxxZ/xh4YabrZk 69gB/9yX8bZ/qR7TzBUkO7BOWCklfJr6kbegeeBtnb0h41+n2o2Q0N4/bcf091pk E+57qkWXbWj84DiJij7t1mKf111l8TE6DYrDTECqiehEXkLfnRm6xHY9Q4z1e/R5 RVMjUENOoX82ocjgUXLD248YiuTJoPhZ4aVCHwin5aIiG2a68FYiFRrKSr25uKVN NJGKuhZbGi8MkB4Rst5AA6nv72EY0Ybh85X41GnLqx/7u0Ps1opy8sphqFMXdOx7 J5KypCYi8e8MhdRsw+7dotDdih+xDpyEOdl8SyZkSKavriqMpPw= =qiHJ -----END PGP SIGNATURE----- Thu Nov 21 01:29:28 UTC 2024 I: Checking whether the package is not for us Thu Nov 21 01:29:28 UTC 2024 I: Starting 1st build on remote node ionos5-amd64.debian.net. Thu Nov 21 01:29:28 UTC 2024 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Thu Nov 21 01:29:28 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos5-amd64.debian.net is marked as down. Thu Nov 21 01:29:28 UTC 2024 - checking via ssh if ionos5-amd64.debian.net is up. removed '/tmp/read-only-fs-test-mcnp31' ==================================================================================== Wed Dec 24 07:52:29 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos5-amd64, called using "1 sra-sdk unstable /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0 3.0.9+dfsg-7" as arguments. Wed Dec 24 07:52:29 UTC 2025 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-WoHG951t" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Wed Dec 24 07:52:29 UTC 2025 I: Downloading source for unstable/sra-sdk=3.0.9+dfsg-7 Reading package lists... NOTICE: 'sra-sdk' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sra-sdk.git Please use: git clone https://salsa.debian.org/med-team/sra-sdk.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 38.4 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (dsc) [2947 B] Get:2 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (tar) [34.6 MB] Get:3 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (diff) [3792 kB] Fetched 38.4 MB in 1s (60.6 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'sra-sdk' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sra-sdk.git Please use: git clone https://salsa.debian.org/med-team/sra-sdk.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 38.4 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (dsc) [2947 B] Get:2 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (tar) [34.6 MB] Get:3 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (diff) [3792 kB] Fetched 38.4 MB in 1s (60.6 MB/s) Download complete and in download only mode ============================================================================= Building sra-sdk in unstable on amd64 on ionos5-amd64 now. Date: Wed Dec 24 07:52:30 UTC 2025 Date UTC: Wed Dec 24 07:52:30 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Tue Dec 23 19:52:30 -12 2025 I: pbuilder-time-stamp: 1766562750 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [sra-sdk_3.0.9+dfsg-7.dsc] I: copying [./sra-sdk_3.0.9+dfsg.orig.tar.xz] I: copying [./sra-sdk_3.0.9+dfsg-7.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Oct 18 03:18:02 2024 gpgv: using RSA key 7C3AB9CFD230BD30DD009C591E7091B1F14A64A2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./sra-sdk_3.0.9+dfsg-7.dsc: no acceptable signature found dpkg-source: info: extracting sra-sdk in sra-sdk-3.0.9+dfsg dpkg-source: info: unpacking sra-sdk_3.0.9+dfsg.orig.tar.xz dpkg-source: info: unpacking sra-sdk_3.0.9+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying set_explicit_path_to_schemata.patch dpkg-source: info: applying python3 dpkg-source: info: applying skip_test_using_lots_of_memory.patch dpkg-source: info: applying find_ncbi-vdb-interfaces.patch dpkg-source: info: applying link_vdb_dynamically.patch dpkg-source: info: applying use_debian_packaged_re2.patch dpkg-source: info: applying use_debian_packaged_compression_libs.patch dpkg-source: info: applying use_soversions.patch dpkg-source: info: applying label_online_tests.patch dpkg-source: info: applying prefer_dynamic_libraries.patch dpkg-source: info: applying fix_ngs-c++-underlinkage.patch dpkg-source: info: applying use_c_locale_for_comma.patch dpkg-source: info: applying no_sse4.2.patch dpkg-source: info: applying fix_arm64_build.patch dpkg-source: info: applying support_libre2-11.patch dpkg-source: info: applying missing_include.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2302652/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='4ec4726b81d146aeacd3e9fe810a50df' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='2302652' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_0dm2 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1 --logfile b1/build.log sra-sdk_3.0.9+dfsg-7.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2302652/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, javahelper, libabsl-dev, libncbi-vdb-dev (>= 3.0.9+dfsg~), libfuse-dev, libhdf5-dev, libmagic-dev, libre2-dev, libxml2-dev, libzstd-dev, liblzma-dev, libsam-extract-dev, maven-repo-helper, python3-all, default-jdk, flex, bison dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libabsl-dev; however: Package libabsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libncbi-vdb-dev (>= 3.0.9+dfsg~); however: Package libncbi-vdb-dev is not installed. pbuilder-satisfydepends-dummy depends on libfuse-dev; however: Package libfuse-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libmagic-dev; however: Package libmagic-dev is not installed. pbuilder-satisfydepends-dummy depends on libre2-dev; however: Package libre2-dev is not installed. pbuilder-satisfydepends-dummy depends on libxml2-dev; however: Package libxml2-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev; however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on libsam-extract-dev; however: Package libsam-extract-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-repo-helper; however: Package maven-repo-helper is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on flex; however: Package flex is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bison{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} comerr-dev{a} d-shlibs{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} fastjar{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} groff-base{a} gtk-update-icon-cache{a} hdf5-helpers{a} hicolor-icon-theme{a} icu-devtools{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} krb5-multidev{a} libabsl-dev{a} libabsl20230802{a} libaec-dev{a} libaec0{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-radeon1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} libevent-2.1-7t64{a} libexpat1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libfuse-dev{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz0b{a} libhdf5-103-1t64{a} libhdf5-cpp-103-1t64{a} libhdf5-dev{a} libhdf5-fortran-102t64{a} libhdf5-hl-100t64{a} libhdf5-hl-cpp-100t64{a} libhdf5-hl-fortran-100t64{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libicu-dev{a} libicu72{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-2.5-0{a} libldap-dev{a} liblerc4{a} libllvm19{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-dev{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmoo-perl{a} libncbi-vdb-dev{a} libncbi-vdb3{a} libncbi-wvdb-dev{a} libncbi-wvdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnpth0t64{a} libnsl2{a} libnspr4{a} libnss3{a} libp11-kit-dev{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libre2-11{a} libre2-dev{a} libreadline8t64{a} librhash1{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsam-extract-dev{a} libsam-extract3{a} libsasl2-2{a} libsasl2-modules-db{a} libselinux1-dev{a} libsensors-config{a} libsensors5{a} libsepol-dev{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsystemd-shared{a} libsz2{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} liburi-perl{a} libuv1t64{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml2{a} libxml2-dev{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} tzdata{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core bzip2-doc chrony curl debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra gnupg-utils gpg-wks-client krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libfl-dev libgdk-pixbuf2.0-bin libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgmock-dev libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev licensecheck lintian linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd unzip wget xdg-user-dirs 0 packages upgraded, 353 newly installed, 0 to remove and 0 not upgraded. Need to get 306 MB of archives. After unpacking 1030 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libapparmor1 amd64 3.1.7-1+b3 [42.1 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libsystemd-shared amd64 257~rc2-3 [2133 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 systemd amd64 257~rc2-3 [3603 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 systemd-sysv amd64 257~rc2-3 [59.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libdbus-1-3 amd64 1.14.10-6 [203 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 dbus-bin amd64 1.14.10-6 [106 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 dbus-session-bus-common all 1.14.10-6 [79.2 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 dbus-daemon amd64 1.14.10-6 [185 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 dbus-system-bus-common all 1.14.10-6 [80.2 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 dbus amd64 1.14.10-6 [98.5 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 flex amd64 2.6.4-8.2+b3 [423 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.0-2 [856 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.0-2 [2038 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libpam-systemd amd64 257~rc2-3 [291 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b1 [759 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1+b1 [141 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 gtk-update-icon-cache amd64 4.16.5+ds-2 [50.3 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 adwaita-icon-theme all 47.0-2 [463 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 at-spi2-common all 2.54.0-1 [170 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 bison amd64 2:3.8.2+dfsg-1+b2 [1170 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.0-1 [2265 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-7 [148 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.0-1 [11.9 MB] Get: 92 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.1-1+b1 [54.8 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 d-shlibs all 0.107 [11.0 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 dbus-user-session amd64 1.14.10-6 [79.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libdconf1 amd64 0.40.0-4+b3 [41.9 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 dconf-service amd64 0.40.0-4+b3 [32.6 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 dconf-gsettings-backend amd64 0.40.0-4+b3 [28.8 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 105 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 java-common all 0.76 [6776 B] Get: 112 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libnss3 amd64 2:3.106-1 [1392 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libpcsclite1 amd64 2.3.0-3 [55.8 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre-headless amd64 21.0.5+11-1 [41.8 MB] Get: 117 http://deb.debian.org/debian unstable/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 118 http://deb.debian.org/debian unstable/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [51.2 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [76.4 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [67.6 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 136 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 libcairo-gobject2 amd64 1.18.2-2 [130 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 libcloudproviders0 amd64 0.3.6-1+b1 [29.2 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 libcolord2 amd64 1.4.7-1+b2 [140 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 libavahi-common-data amd64 0.8-13+b3 [112 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 libavahi-common3 amd64 0.8-13+b3 [43.2 kB] Get: 143 http://deb.debian.org/debian unstable/main amd64 libavahi-client3 amd64 0.8-13+b3 [47.5 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 libcups2t64 amd64 2.4.10-2 [251 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 147 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get: 150 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [223 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [54.2 kB] Get: 155 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [35.2 kB] Get: 156 http://deb.debian.org/debian unstable/main amd64 libwayland-client0 amd64 1.23.0-1+b1 [26.6 kB] Get: 157 http://deb.debian.org/debian unstable/main amd64 libwayland-cursor0 amd64 1.23.0-1+b1 [11.7 kB] Get: 158 http://deb.debian.org/debian unstable/main amd64 libwayland-egl1 amd64 1.23.0-1+b1 [5664 B] Get: 159 http://deb.debian.org/debian unstable/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 160 http://deb.debian.org/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b2 [20.3 kB] Get: 161 http://deb.debian.org/debian unstable/main amd64 libxcursor1 amd64 1:1.2.2-1+b1 [37.6 kB] Get: 162 http://deb.debian.org/debian unstable/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 163 http://deb.debian.org/debian unstable/main amd64 libxinerama1 amd64 2:1.1.4-3+b2 [16.0 kB] Get: 164 http://deb.debian.org/debian unstable/main amd64 xkb-data all 2.42-1 [790 kB] Get: 165 http://deb.debian.org/debian unstable/main amd64 libxkbcommon0 amd64 1.7.0-1 [113 kB] Get: 166 http://deb.debian.org/debian unstable/main amd64 libxrandr2 amd64 2:1.5.4-1+b1 [36.3 kB] Get: 167 http://deb.debian.org/debian unstable/main amd64 libgtk-3-common all 3.24.43-4 [4657 kB] Get: 168 http://deb.debian.org/debian unstable/main amd64 libgtk-3-0t64 amd64 3.24.43-4 [2754 kB] Get: 169 http://deb.debian.org/debian unstable/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 170 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get: 171 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get: 172 http://deb.debian.org/debian unstable/main amd64 libglapi-mesa amd64 24.2.7-1 [37.9 kB] Get: 173 http://deb.debian.org/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [241 kB] Get: 174 http://deb.debian.org/debian unstable/main amd64 libxcb-dri2-0 amd64 1.17.0-2+b1 [107 kB] Get: 175 http://deb.debian.org/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 176 http://deb.debian.org/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 177 http://deb.debian.org/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 178 http://deb.debian.org/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 179 http://deb.debian.org/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 180 http://deb.debian.org/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 181 http://deb.debian.org/debian unstable/main amd64 libxshmfence1 amd64 1.3-1+b2 [8848 B] Get: 182 http://deb.debian.org/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b3 [19.3 kB] Get: 183 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get: 184 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b2 [51.9 kB] Get: 185 http://deb.debian.org/debian unstable/main amd64 libdrm-intel1 amd64 2.4.123-1 [63.7 kB] Get: 186 http://deb.debian.org/debian unstable/main amd64 libdrm-radeon1 amd64 2.4.123-1 [22.3 kB] Get: 187 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get: 188 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 189 http://deb.debian.org/debian unstable/main amd64 libllvm19 amd64 1:19.1.3-2 [26.0 MB] Get: 190 http://deb.debian.org/debian unstable/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 191 http://deb.debian.org/debian unstable/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB] Get: 192 http://deb.debian.org/debian unstable/main amd64 mesa-libgallium amd64 24.2.7-1 [9186 kB] Get: 193 http://deb.debian.org/debian unstable/main amd64 libvulkan1 amd64 1.3.296.0-1 [126 kB] Get: 194 http://deb.debian.org/debian unstable/main amd64 libwayland-server0 amd64 1.23.0-1+b1 [34.2 kB] Get: 195 http://deb.debian.org/debian unstable/main amd64 libgbm1 amd64 24.2.7-1 [42.8 kB] Get: 196 http://deb.debian.org/debian unstable/main amd64 libgl1-mesa-dri amd64 24.2.7-1 [43.9 kB] Get: 197 http://deb.debian.org/debian unstable/main amd64 libglx-mesa0 amd64 24.2.7-1 [154 kB] Get: 198 http://deb.debian.org/debian unstable/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 199 http://deb.debian.org/debian unstable/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 200 http://deb.debian.org/debian unstable/main amd64 libasound2-data all 1.2.12-1 [21.0 kB] Get: 201 http://deb.debian.org/debian unstable/main amd64 libasound2t64 amd64 1.2.12-1+b1 [371 kB] Get: 202 http://deb.debian.org/debian unstable/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 203 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 204 http://deb.debian.org/debian unstable/main amd64 libxtst6 amd64 2:1.2.3-1.1+b2 [25.9 kB] Get: 205 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre amd64 21.0.5+11-1 [205 kB] Get: 206 http://deb.debian.org/debian unstable/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 207 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jdk-headless amd64 21.0.5+11-1 [82.8 MB] Get: 208 http://deb.debian.org/debian unstable/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 209 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jdk amd64 21.0.5+11-1 [3360 kB] Get: 210 http://deb.debian.org/debian unstable/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 211 http://deb.debian.org/debian unstable/main amd64 libassuan9 amd64 3.0.1-2 [60.6 kB] Get: 212 http://deb.debian.org/debian unstable/main amd64 gpgconf amd64 2.2.45-2 [120 kB] Get: 213 http://deb.debian.org/debian unstable/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 214 http://deb.debian.org/debian unstable/main amd64 libnpth0t64 amd64 1.6-3.1+b1 [18.2 kB] Get: 215 http://deb.debian.org/debian unstable/main amd64 dirmngr amd64 2.2.45-2 [368 kB] Get: 216 http://deb.debian.org/debian unstable/main amd64 gnupg-l10n all 2.2.45-2 [705 kB] Get: 217 http://deb.debian.org/debian unstable/main amd64 gpg amd64 2.2.45-2 [531 kB] Get: 218 http://deb.debian.org/debian unstable/main amd64 pinentry-curses amd64 1.2.1-4+b1 [79.7 kB] Get: 219 http://deb.debian.org/debian unstable/main amd64 gpg-agent amd64 2.2.45-2 [251 kB] Get: 220 http://deb.debian.org/debian unstable/main amd64 gpgsm amd64 2.2.45-2 [255 kB] Get: 221 http://deb.debian.org/debian unstable/main amd64 gnupg all 2.2.45-2 [376 kB] Get: 222 http://deb.debian.org/debian unstable/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 223 http://deb.debian.org/debian unstable/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 224 http://deb.debian.org/debian unstable/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 225 http://deb.debian.org/debian unstable/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 226 http://deb.debian.org/debian unstable/main amd64 libio-pty-perl amd64 1:1.20-1+b2 [34.3 kB] Get: 227 http://deb.debian.org/debian unstable/main amd64 libipc-run-perl all 20231003.0-2 [101 kB] Get: 228 http://deb.debian.org/debian unstable/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 229 http://deb.debian.org/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b4 [36.1 kB] Get: 230 http://deb.debian.org/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 231 http://deb.debian.org/debian unstable/main amd64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 232 http://deb.debian.org/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get: 233 http://deb.debian.org/debian unstable/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 234 http://deb.debian.org/debian unstable/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 235 http://deb.debian.org/debian unstable/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 236 http://deb.debian.org/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 237 http://deb.debian.org/debian unstable/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 238 http://deb.debian.org/debian unstable/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 239 http://deb.debian.org/debian unstable/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 240 http://deb.debian.org/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 241 http://deb.debian.org/debian unstable/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 242 http://deb.debian.org/debian unstable/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 243 http://deb.debian.org/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 244 http://deb.debian.org/debian unstable/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 245 http://deb.debian.org/debian unstable/main amd64 libhtml-parser-perl amd64 3.83-1+b1 [99.7 kB] Get: 246 http://deb.debian.org/debian unstable/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 247 http://deb.debian.org/debian unstable/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 248 http://deb.debian.org/debian unstable/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 249 http://deb.debian.org/debian unstable/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 250 http://deb.debian.org/debian unstable/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 251 http://deb.debian.org/debian unstable/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 252 http://deb.debian.org/debian unstable/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 253 http://deb.debian.org/debian unstable/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 254 http://deb.debian.org/debian unstable/main amd64 libnet-ssleay-perl amd64 1.94-2 [339 kB] Get: 255 http://deb.debian.org/debian unstable/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get: 256 http://deb.debian.org/debian unstable/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get: 257 http://deb.debian.org/debian unstable/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 258 http://deb.debian.org/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 259 http://deb.debian.org/debian unstable/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 260 http://deb.debian.org/debian unstable/main amd64 libwww-perl all 6.77-1 [183 kB] Get: 261 http://deb.debian.org/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 262 http://deb.debian.org/debian unstable/main amd64 wdiff amd64 1.2.2-6 [119 kB] Get: 263 http://deb.debian.org/debian unstable/main amd64 devscripts all 2.24.3 [1079 kB] Get: 264 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 265 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 266 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 267 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 268 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 269 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 270 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 271 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 272 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 273 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 274 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB] Get: 275 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB] Get: 276 http://deb.debian.org/debian unstable/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 277 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get: 278 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 72.1-5+b1 [210 kB] Get: 279 http://deb.debian.org/debian unstable/main amd64 jarwrapper all 0.80 [9692 B] Get: 280 http://deb.debian.org/debian unstable/main amd64 javahelper all 0.80 [80.4 kB] Get: 281 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.21.3-3 [59.5 kB] Get: 282 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.21.3-3 [41.7 kB] Get: 283 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.21.3-3 [42.0 kB] Get: 284 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.21.3-3 [53.5 kB] Get: 285 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.21.3-3 [126 kB] Get: 286 http://deb.debian.org/debian unstable/main amd64 libabsl20230802 amd64 20230802.1-4 [464 kB] Get: 287 http://deb.debian.org/debian unstable/main amd64 libabsl-dev amd64 20230802.1-4 [1208 kB] Get: 288 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get: 289 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get: 290 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get: 291 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get: 292 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 293 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB] Get: 294 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.21.3-3 [15.7 kB] Get: 295 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.5.18+dfsg-3+b1 [303 kB] Get: 296 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 297 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 298 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 299 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get: 300 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 301 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b2 [329 kB] Get: 302 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b2 [642 kB] Get: 303 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 304 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.22.0-1 [598 kB] Get: 305 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.8-2 [449 kB] Get: 306 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.8-2 [449 kB] Get: 307 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-2+b1 [208 kB] Get: 308 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.19.0-3+b3 [98.9 kB] Get: 309 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10-1+b1 [1317 kB] Get: 310 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.8-2 [1391 kB] Get: 311 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 312 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get: 313 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.3.2-2 [2742 kB] Get: 314 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 315 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 316 http://deb.debian.org/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.11.0-1 [461 kB] Get: 317 http://deb.debian.org/debian unstable/main amd64 libsepol-dev amd64 3.7-1 [370 kB] Get: 318 http://deb.debian.org/debian unstable/main amd64 libpcre2-16-0 amd64 10.44-4 [261 kB] Get: 319 http://deb.debian.org/debian unstable/main amd64 libpcre2-32-0 amd64 10.44-4 [248 kB] Get: 320 http://deb.debian.org/debian unstable/main amd64 libpcre2-posix3 amd64 10.44-4 [60.3 kB] Get: 321 http://deb.debian.org/debian unstable/main amd64 libpcre2-dev amd64 10.44-4 [790 kB] Get: 322 http://deb.debian.org/debian unstable/main amd64 libselinux1-dev amd64 3.7-3+b1 [160 kB] Get: 323 http://deb.debian.org/debian unstable/main amd64 libfuse-dev amd64 2.9.9-9 [1022 kB] Get: 324 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get: 325 http://deb.debian.org/debian unstable/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get: 326 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get: 327 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get: 328 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get: 329 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get: 330 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get: 331 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3+b1 [292 kB] Get: 332 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3+b1 [72.2 kB] Get: 333 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get: 334 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 72.1-5+b1 [10.4 MB] Get: 335 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.3-1+b1 [316 kB] Get: 336 http://deb.debian.org/debian unstable/main amd64 libmagic-dev amd64 1:5.45-3+b1 [121 kB] Get: 337 http://deb.debian.org/debian unstable/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB] Get: 338 http://deb.debian.org/debian unstable/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB] Get: 339 http://deb.debian.org/debian unstable/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB] Get: 340 http://deb.debian.org/debian unstable/main amd64 ncbi-vdb-data all 3.0.9+dfsg-2 [74.0 kB] Get: 341 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb3 amd64 3.0.9+dfsg-2 [1189 kB] Get: 342 http://deb.debian.org/debian unstable/main amd64 libncbi-wvdb3 amd64 3.0.9+dfsg-2 [1191 kB] Get: 343 http://deb.debian.org/debian unstable/main amd64 libncbi-wvdb-dev amd64 3.0.9+dfsg-2 [1311 kB] Get: 344 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb-dev amd64 3.0.9+dfsg-2 [1612 kB] Get: 345 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [1992 kB] Get: 346 http://deb.debian.org/debian unstable/main amd64 libre2-11 amd64 20240501-3+b1 [196 kB] Get: 347 http://deb.debian.org/debian unstable/main amd64 libre2-dev amd64 20240501-3+b1 [255 kB] Get: 348 http://deb.debian.org/debian unstable/main amd64 libsam-extract3 amd64 3.0.9+dfsg-2 [43.6 kB] Get: 349 http://deb.debian.org/debian unstable/main amd64 libsam-extract-dev amd64 3.0.9+dfsg-2 [45.2 kB] Get: 350 http://deb.debian.org/debian unstable/main amd64 libxml2-dev amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [795 kB] Get: 351 http://deb.debian.org/debian unstable/main amd64 maven-repo-helper all 1.11 [142 kB] Get: 352 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 353 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Fetched 306 MB in 52s (5866 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../libapparmor1_3.1.7-1+b3_amd64.deb ... Unpacking libapparmor1:amd64 (3.1.7-1+b3) ... Selecting previously unselected package libsystemd-shared:amd64. Preparing to unpack .../libsystemd-shared_257~rc2-3_amd64.deb ... Unpacking libsystemd-shared:amd64 (257~rc2-3) ... Selecting previously unselected package systemd. Preparing to unpack .../systemd_257~rc2-3_amd64.deb ... Unpacking systemd (257~rc2-3) ... Setting up libapparmor1:amd64 (3.1.7-1+b3) ... Setting up libsystemd-shared:amd64 (257~rc2-3) ... Setting up systemd (257~rc2-3) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20922 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_257~rc2-3_amd64.deb ... Unpacking systemd-sysv (257~rc2-3) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.14.10-6_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-6) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.14.10-6_amd64.deb ... Unpacking dbus-bin (1.14.10-6) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.14.10-6_all.deb ... Unpacking dbus-session-bus-common (1.14.10-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../04-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../05-dbus-daemon_1.14.10-6_amd64.deb ... Unpacking dbus-daemon (1.14.10-6) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../06-dbus-system-bus-common_1.14.10-6_all.deb ... Unpacking dbus-system-bus-common (1.14.10-6) ... Selecting previously unselected package dbus. Preparing to unpack .../07-dbus_1.14.10-6_amd64.deb ... Unpacking dbus (1.14.10-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../09-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package flex. Preparing to unpack .../11-flex_2.6.4-8.2+b3_amd64.deb ... Unpacking flex (2.6.4-8.2+b3) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../12-libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../13-python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21539 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 22601 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../001-libpython3.13-minimal_3.13.0-2_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../002-python3.13-minimal_3.13.0-2_amd64.deb ... Unpacking python3.13-minimal (3.13.0-2) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../003-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../008-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../009-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../010-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../011-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../012-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../013-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package libpam-systemd:amd64. 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Setting up libelf1t64:amd64 (0.192-4) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Dec 24 07:55:31 UTC 2025. Universal Time is now: Wed Dec 24 07:55:31 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... Setting up libasound2-data (1.2.12-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:amd64 (4.13.3-1) ... Setting up libpcre2-32-0:amd64 (10.44-4) ... Setting up libglib2.0-0t64:amd64 (2.82.2-3) ... Setting up libunbound8:amd64 (1.22.0-1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b2) ... Setting up libasound2t64:amd64 (1.2.12-1+b1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libgnutls-dane0t64:amd64 (3.8.8-2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-3+b1) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.36-1) ... Setting up gnupg-l10n (2.2.45-2) ... Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libavahi-common-data:amd64 (0.8-13+b3) ... Setting up libdbus-1-3:amd64 (1.14.10-6) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up comerr-dev:amd64 (2.1-1.47.1-1+b1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:amd64 (3.3.2-2) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.22.5-2) ... Setting up binfmt-support (2.2.2-7) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Created symlink '/etc/systemd/system/multi-user.target.wants/binfmt-support.service' -> '/usr/lib/systemd/system/binfmt-support.service'. Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up icu-devtools (72.1-5+b1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up d-shlibs (0.107) ... Setting up libipc-run-perl (20231003.0-2) ... Setting up libsepol-dev:amd64 (3.7-1) ... Setting up libpcsclite1:amd64 (2.3.0-3) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libsensors5:amd64 (1:3.6.0-10+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libidn2-dev:amd64 (2.3.7-2+b1) ... Setting up libglapi-mesa:amd64 (24.2.7-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libvulkan1:amd64 (1.3.296.0-1) ... Setting up autoconf (2.72-3) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up liblzma-dev:amd64 (5.6.3-1+b1) ... Setting up libxcb-dri2-0:amd64 (1.17.0-2+b1) ... Setting up libgif7:amd64 (5.2.2-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpcre2-posix3:amd64 (10.44-4) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:amd64 (1.3-1+b2) ... Setting up at-spi2-common (2.54.0-1) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.14.10-6) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libassuan9:amd64 (3.0.1-2) ... Setting up procps (2:4.0.4-6) ... Setting up bison (2:3.8.2+dfsg-1+b2) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up librole-tiny-perl (2.002004-1) ... Setting up python3.13-minimal (3.13.0-2) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up ncbi-vdb-data (3.0.9+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.4) ... Setting up libabsl20230802:amd64 (20230802.1-4) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b4) ... Setting up libsam-extract3:amd64 (3.0.9+dfsg-2) ... Setting up cmake-data (3.31.0-1) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libwayland-egl1:amd64 (1.23.0-1+b1) ... Setting up libmbedcrypto16:amd64 (3.6.2-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up dbus-system-bus-common (1.14.10-6) ... useradd: Warning: missing or non-executable shell '/usr/sbin/nologin' Setting up libfile-homedir-perl (1.006-2) ... Setting up libtasn1-6-dev:amd64 (4.19.0-3+b3) ... Setting up openssl (3.3.2-2) ... Setting up libdrm-common (2.4.123-1) ... Setting up libxcomposite1:amd64 (1:0.4.6-1) ... Setting up readline-common (8.2-5) ... Setting up libicu-dev:amd64 (72.1-5+b1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up liburi-perl (5.30-1) ... Setting up dbus-bin (1.14.10-6) ... Setting up libsam-extract-dev:amd64 (3.0.9+dfsg-2) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libfile-touch-perl (0.12-2) ... Setting up libp11-kit-dev:amd64 (0.25.5-2+b1) ... Setting up libsz2:amd64 (1.1.3-1+b1) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up libxkbcommon0:amd64 (1.7.0-1) ... Setting up libwayland-client0:amd64 (1.23.0-1+b1) ... Setting up libnet-ssleay-perl:amd64 (1.94-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.2.1-4+b1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Setting up libllvm19:amd64 (1:19.1.3-2) ... Setting up libx11-xcb1:amd64 (2:1.8.10-2) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libre2-11:amd64 (20240501-3+b1) ... Setting up flex (2.6.4-8.2+b3) ... Setting up gettext (0.22.5-2) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-2+b2) ... Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libpcre2-dev:amd64 (10.44-4) ... Setting up nettle-dev:amd64 (3.10-1+b1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up jarwrapper (0.80) ... Setting up libtool (2.4.7-8) ... Setting up libselinux1-dev:amd64 (3.7-3+b1) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libaec-dev:amd64 (1.1.3-1+b1) ... Setting up libavahi-common3:amd64 (0.8-13+b3) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3+b1) ... Setting up libcloudproviders0:amd64 (0.3.6-1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libnet-http-perl (6.23-1) ... Setting up libnss3:amd64 (2:3.106-1) ... Setting up dbus-daemon (1.14.10-6) ... Setting up libfuse-dev:amd64 (2.9.9-9) ... Setting up libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libcolord2:amd64 (1.4.7-1+b2) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libdconf1:amd64 (0.40.0-4+b3) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libxml2-dev:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libmbedx509-7:amd64 (3.6.2-3) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b2) ... Setting up libldap-dev:amd64 (2.5.18+dfsg-3+b1) ... Setting up dbus (1.14.10-6) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b1) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libabsl-dev:amd64 (20230802.1-4) ... Setting up libmbedtls21:amd64 (3.6.2-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.123-1) ... Setting up groff-base (1.23.0-5) ... Setting up libwayland-cursor0:amd64 (1.23.0-1+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b1) ... Setting up gpgconf (2.2.45-2) ... Setting up libpam-systemd:amd64 (257~rc2-3) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libre2-dev:amd64 (20240501-3+b1) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... Setting up libavahi-client3:amd64 (0.8-13+b3) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.45-2) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libdrm-amdgpu1:amd64 (2.4.123-1) ... Setting up libgnutls28-dev:amd64 (3.8.8-2) ... Setting up gtk-update-icon-cache (4.16.5+ds-2) ... Setting up libnghttp2-dev:amd64 (1.64.0-1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up gpg-agent (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up libcurl4t64:amd64 (8.11.0-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.0-2) ... Setting up libdrm-radeon1:amd64 (2.4.123-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1+b2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.2-1+b1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up gpgsm (2.2.45-2) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libdrm-intel1:amd64 (2.4.123-1) ... Setting up libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.2-2) ... Setting up dirmngr (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/dirmngr.socket' -> '/usr/lib/systemd/user/dirmngr.socket'. Setting up dbus-user-session (1.14.10-6) ... Setting up adwaita-icon-theme (47.0-2) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.016-2) ... Setting up libgssrpc4t64:amd64 (1.21.3-3) ... Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libncbi-wvdb3:amd64 (3.0.9+dfsg-2) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up gnupg (2.2.45-2) ... Setting up cmake (3.31.0-1) ... Setting up libcairo-gobject2:amd64 (1.18.2-2) ... Setting up libncbi-wvdb-dev:amd64 (3.0.9+dfsg-2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libcups2t64:amd64 (2.4.10-2) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-3) ... Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Setting up mesa-libgallium:amd64 (24.2.7-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.7-3) ... Setting up libkdb5-10t64:amd64 (1.21.3-3) ... Setting up libgbm1:amd64 (24.2.7-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up python3.12 (3.12.7-3) ... Setting up libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libgl1-mesa-dri:amd64 (24.2.7-1) ... Setting up libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Setting up debhelper (13.20) ... Setting up dconf-service (0.40.0-4+b3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-3) ... Setting up libncbi-vdb-dev:amd64 (3.0.9+dfsg-2) ... Setting up libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Setting up libpython3-stdlib:amd64 (3.12.7-1) ... Setting up krb5-multidev:amd64 (1.21.3-3) ... Setting up libglx-mesa0:amd64 (24.2.7-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-4+b3) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up libkrb5-dev:amd64 (1.21.3-3) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libcurl4-openssl-dev:amd64 (8.11.0-1) ... Setting up libhdf5-dev (1.10.10+repack-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-typing-extensions (4.12.2-2) ... Setting up libgtk-3-common (3.24.43-4) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.7-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libgtk-3-0t64:amd64 (3.24.43-4) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-setuptools (75.2.0-1) ... Setting up dh-python (6.20241024) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.77-1) ... Setting up devscripts (2.24.3) ... Setting up javahelper (0.80) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for systemd (257~rc2-3) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jre:amd64 (21.0.5+11-1) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.11) ... Setting up default-jre (2:1.21-76) ... Setting up openjdk-21-jdk:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../sra-sdk_3.0.9+dfsg-7_source.changes dpkg-buildpackage: info: source package sra-sdk dpkg-buildpackage: info: source version 3.0.9+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Aaron M. Ucko dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_clean rm -rf ngs/ngs-java/x86_64-linux-gnu rm -rf ngs/ngs-bam/x86_64-linux-gnu rm -f ngs/ngs-bam/Makefile.config rm -f ngs/ngs-bam/Makefile.config.install.linux.x86_64.prl rm -f ngs/ngs-bam/Makefile.config.linux.x86_64 rm -f ngs/ngs-bam/reconfigure rm -rf ngs/ngs-sdk/ngs/unix/generic rm -rf ngs/ngs-sdk/x86_64-linux-gnu rm -rf ngs/ngs-python/build ngs/ngs-python/dist rm -rf ngs/ngs-python/ngs.egg-info find test tools -name actual -type d | xargs -rt rm -rf rm -rf ngs/ngs-*/examples/actual/* rm -fv test/*/*/tmp.kfg rm -rf libs/ngs-vdb/test/data/SparseFragmentBlobs rm -rf test/external/vdb-dump/data test/loaders/bam-load/out.sra find tools/loaders/general-loader/test -name input | xargs -rt rm -rf rm -f ngs/ngs-sdk/examples/actual.txt rm debian/libngs-jni.links rm: cannot remove 'debian/libngs-jni.links': No such file or directory make[1]: [debian/rules:48: override_dh_auto_clean] Error 1 (ignored) make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_configure -- -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu \ -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON \ -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON \ -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF \ -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE .. CMAKE_VERSION=3.31.0 -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at build/env.cmake:32 (cmake_policy): The OLD behavior for policy CMP0115 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. Call Stack (most recent call first): CMakeLists.txt:62 (include) BUILD_TOOLS_INTERNAL=ON BUILD_TOOLS_LOADERS=ON BUILD_TOOLS_TEST_TOOLS=ON TOOLS_ONLY=OFF VERSION=3.0.9 -- Found FLEX: /usr/bin/flex (found suitable version "2.6.4", minimum required is "2.6") -- Found BISON: /usr/bin/bison (found suitable version "3.8.2", minimum required is "3") -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.9.14") LIBXML2_INCLUDE_DIR=/usr/include/libxml2 LIBXML2_LIBRARIES=/usr/lib/x86_64-linux-gnu/libxml2.so -- Found Java: /usr/bin/java (found version "21.0.5") found components: Development -- Found Python3: /usr/bin/python3 (found version "3.12.7") found components: Interpreter Using ncbi-vdb interfaces: /usr/include/ncbi-vdb Using ncbi-vdb binary libraries: /usr/lib/x86_64-linux-gnu -- Looking for C++ include mbedtls/md.h -- Looking for C++ include mbedtls/md.h - not found RUN_SANITIZER_TESTS: OFF -- Found JNI: /usr/lib/jvm/default-java/include found components: AWT JVM -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE RE2_FOUND=FALSE SharQ is not built: ZLIB_FOUND=TRUE BZip2_FOUND=TRUE Threads_FOUND=TRUE RE2_FOUND=FALSE -- Found HDF5: /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libcrypto.so;/usr/lib/x86_64-linux-gnu/libcurl.so;/usr/lib/x86_64-linux-gnu/libpthread.a;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.a;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.10") found components: C CMake Deprecation Warning at tools/test-tools/qa-stats/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. RE2_FOUND=FALSE -- Configuring done (1.7s) -- Generating done (0.6s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_linkjars -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/depend make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/depend make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/depend make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/depend make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared/CMakeFiles/tk-version.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/depend make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs/CMakeFiles/ngs.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/depend make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/DependInfo.cmake "--color=" make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/DependInfo.cmake "--color=" make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/DependInfo.cmake "--color=" make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/DependInfo.cmake "--color=" make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/DependInfo.cmake "--color=" make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml/CMakeFiles/kxml.dir/DependInfo.cmake "--color=" make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader 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make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/DependInfo.cmake "--color=" make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/depend make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose/CMakeFiles/diagnose.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp 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make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/DependInfo.cmake "--color=" make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/depend make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/depend make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/depend make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool/CMakeFiles/sratools.dir/DependInfo.cmake "--color=" make -f 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/DependInfo.cmake "--color=" make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/DependInfo.cmake "--color=" make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/DependInfo.cmake "--color=" make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/build make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javadoc -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc -sourcepath "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java" gov.nih.nlm.ncbi.ngs ngs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/build make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/build make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/build make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/build make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build [ 0%] Building C object shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o [ 0%] Building C object ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"shared\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o -MF CMakeFiles/tk-version.dir/toolkit.vers.c.o.d -o CMakeFiles/tk-version.dir/toolkit.vers.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-py\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o -MF CMakeFiles/ngs-py.dir/py_Manager.c.o.d -o CMakeFiles/ngs-py.dir/py_Manager.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py/py_Manager.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_Manager.c [ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o [ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o [ 1%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build [ 2%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o [ 2%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -MF CMakeFiles/ngs.dir/NCBI-NGS.c.o.d -o CMakeFiles/ngs.dir/NCBI-NGS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NCBI-NGS.c make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build [ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o [ 2%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceSequenceItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -MF CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o.d -o CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_ErrorMsg.c [ 3%] Building Java objects for ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReferenceIterator.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 3%] Building C object libs/kxml/CMakeFiles/kxml.dir/xml.c.o [ 3%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceItf.cpp [ 3%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_AlignmentIteratorItf.cpp [ 3%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadCollectionItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o -MF CMakeFiles/ngs-jni.dir/jni_String.c.o.d -o CMakeFiles/ngs-jni.dir/jni_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_String.c cd 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -MF CMakeFiles/ngs.dir/CSRA1_Alignment.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Alignment.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadCollectionItf.cpp [ 4%] Building C object libs/loader/CMakeFiles/loader.dir/progressbar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -MF CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_PileupEvent.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/progressbar.c.o -MF CMakeFiles/loader.dir/progressbar.c.o.d -o CMakeFiles/loader.dir/progressbar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/progressbar.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReadCollection.cpp [ 4%] Building C object libs/ascp/CMakeFiles/ascp.dir/ascp.c.o [ 4%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o [ 4%] Building CXX object tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o [ 4%] Building CXX object libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o [ 4%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o [ 5%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadCollection.cpp [ 5%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o -MF CMakeFiles/general-writer.dir/general-writer.cpp.o.d -o CMakeFiles/general-writer.dir/general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/general-writer.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -MF CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o.d -o CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/checklookup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -MF CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o.d -o CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_cpp.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o -MF CMakeFiles/qa-stats.dir/main.cpp.o.d -o CMakeFiles/qa-stats.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -MF CMakeFiles/sratools.dir/sratools.cpp.o.d -o CMakeFiles/sratools.dir/sratools.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp [ 5%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o [ 5%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o [ 5%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -MF CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-build-version.cpp [ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -MF CMakeFiles/fastqloader.dir/spot-assembler.c.o.d -o CMakeFiles/fastqloader.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-json-parse.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o -MF CMakeFiles/tui.dir/dir_dlg.c.o.d -o CMakeFiles/tui.dir/dir_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/dir_dlg.c [ 6%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o [ 7%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -MF CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-command-line.cpp [ 7%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o [ 7%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -MF CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o.d -o CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-sdl-response.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -MF CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o.d -o CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-uuid.cpp [ 7%] Building CXX object test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load/sam-platform.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -MF CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o.d -o CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -h ./jni @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_sources [ 7%] Linking C static library ../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -P CMakeFiles/tk-version.dir/cmake_clean_target.cmake [ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Reference.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -E cmake_link_script CMakeFiles/tk-version.dir/link.txt --verbose=1 [ 7%] Building C object libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -MF CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o.d -o CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/utf8-like-int-codec.c [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-file.c.o -MF CMakeFiles/loader.dir/loader-file.c.o.d -o CMakeFiles/loader.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-file.c [ 7%] Linking C static library ../../../ilib/libngs-jni.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -P CMakeFiles/ngs-jni.dir/cmake_clean_target.cmake [ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o [ 7%] Linking C static library ../../../ilib/libngs-py.a /usr/bin/ar qc ../ilib/libtk-version.a "CMakeFiles/tk-version.dir/toolkit.vers.c.o" /usr/bin/ranlib ../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -P CMakeFiles/ngs-py.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-jni.dir/link.txt --verbose=1 [ 7%] Built target tk-version cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-py.dir/link.txt --verbose=1 [ 7%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -MF CMakeFiles/diagnose.dir/endpoint.c.o.d -o CMakeFiles/diagnose.dir/endpoint.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose/endpoint.c [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -MF CMakeFiles/tui.dir/eventring.c.o.d -o CMakeFiles/tui.dir/eventring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/eventring.c /usr/bin/ar qc ../../../ilib/libngs-py.a "CMakeFiles/ngs-py.dir/py_Manager.c.o" /usr/bin/ranlib ../../../ilib/libngs-py.a /usr/bin/ar qc ../../../ilib/libngs-jni.a "CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "CMakeFiles/ngs-jni.dir/jni_String.c.o" "CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../../ilib/libngs-jni.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 7%] Built target ngs-py [ 7%] Built target ngs-jni [ 7%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o [ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -MF CMakeFiles/qa-stats.dir/input.cpp.o.d -o CMakeFiles/qa-stats.dir/input.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/input.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlobIterator.cpp [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o -MF CMakeFiles/fastqloader.dir/common-writer.c.o.d -o CMakeFiles/fastqloader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c [ 7%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReferenceWindow.c [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o [ 7%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o -MF CMakeFiles/tui.dir/line_policy.c.o.d -o CMakeFiles/tui.dir/line_policy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/line_policy.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceItf.cpp [ 7%] Building C object libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -Wno-unused-result -MD -MT libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o -MF CMakeFiles/ascp.dir/unix/connect.c.o.d -o CMakeFiles/ascp.dir/unix/connect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/unix/connect.c [ 7%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3vdb.c [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o [ 7%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o.d -o 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CMakeFiles/kxml.dir/xtoc.c.o.d -o CMakeFiles/kxml.dir/xtoc.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc.c [ 7%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o -MF CMakeFiles/kxml.dir/xtoc-parsexml.c.o.d -o CMakeFiles/kxml.dir/xtoc-parsexml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc-parsexml.c [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/PileupEventItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceSequenceItf.cpp [ 7%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -MF CMakeFiles/sratools.dir/config.cpp.o.d -o CMakeFiles/sratools.dir/config.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/config.cpp [ 7%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -MF CMakeFiles/ngs.dir/CSRA1_Reference.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Reference.c [ 7%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o -MF CMakeFiles/qa-stats.dir/output.cpp.o.d -o CMakeFiles/qa-stats.dir/output.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/output.cpp make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupIterator.cpp [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/loader-meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-meta.c.o -MF CMakeFiles/loader.dir/loader-meta.c.o.d -o CMakeFiles/loader.dir/loader-meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-meta.c [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/queue-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/queue-file.c.o -MF CMakeFiles/loader.dir/queue-file.c.o.d -o CMakeFiles/loader.dir/queue-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/queue-file.c [ 7%] Building CXX object libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -MF CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o.d -o CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_makedb.cpp [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.cpp:36, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp:39: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o -MF CMakeFiles/tui.dir/screen.c.o.d -o CMakeFiles/tui.dir/screen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/screen.c [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentItf.cpp [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o -MF CMakeFiles/loader.dir/alignment-writer.c.o.d -o CMakeFiles/loader.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/alignment-writer.c [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-reader.c.o -MF CMakeFiles/loader.dir/common-reader.c.o.d -o CMakeFiles/loader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-reader.c In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp:59: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 7%] Linking CXX executable ../../../test-bin/Test_BamLoader_platform cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_BamLoader_platform.dir/link.txt --verbose=1 [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o [ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PackageItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlob.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentIteratorItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o -MF 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupEventIteratorItf.cpp [ 9%] Building C object libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o -MF CMakeFiles/ascp.dir/linux/ascp-path.c.o.d -o CMakeFiles/ascp.dir/linux/ascp-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/linux/ascp-path.c [ 9%] Linking CXX static library ../../../../ilib/libtui_cpp.a [ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui_cpp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReadCollection.c [ 9%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Pileup.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_BamLoader_platform.dir/link.d "CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o" -o ../../../test-bin/Test_BamLoader_platform make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui_cpp.dir/link.txt --verbose=1 [ 9%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o -MF CMakeFiles/tui.dir/string_cache.c.o.d -o CMakeFiles/tui.dir/string_cache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/string_cache.c [ 9%] Built target Test_BamLoader_platform [ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o -MF CMakeFiles/ngs.dir/CSRA1_Read.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Read.c /usr/bin/ar qc ../../../../ilib/libtui_cpp.a CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o /usr/bin/ranlib ../../../../ilib/libtui_cpp.a [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/EBI_ReferenceSequence.c [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -MF CMakeFiles/ngs.dir/SRA_Statistics.c.o.d -o CMakeFiles/ngs.dir/SRA_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Statistics.c [ 10%] Built target tui_cpp [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o [ 10%] Linking C static library ../../ilib/libascp.a [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -P CMakeFiles/ascp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/AlignmentItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceSequenceItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ascp.dir/link.txt --verbose=1 [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupIteratorItf.cpp /usr/bin/ar qc ../../ilib/libascp.a CMakeFiles/ascp.dir/ascp.c.o CMakeFiles/ascp.dir/unix/connect.c.o "CMakeFiles/ascp.dir/linux/ascp-path.c.o" /usr/bin/ranlib ../../ilib/libascp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 10%] Building C object libs/loader/CMakeFiles/loader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-writer.c.o -MF CMakeFiles/loader.dir/common-writer.c.o.d -o CMakeFiles/loader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-writer.c [ 10%] Built target ascp [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadGroupItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupIteratorItf.cpp [ 10%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -MF CMakeFiles/fastqloader.dir/sequence-writer.c.o.d -o CMakeFiles/fastqloader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupItf.cpp [ 10%] Linking CXX executable ../../../test-bin/Test_Drivertool_BuildVersion Loading source files for package gov.nih.nlm.ncbi.ngs... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_BuildVersion.dir/link.txt --verbose=1 [ 10%] Linking C static library ../../ilib/libkxml.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -P CMakeFiles/kxml.dir/cmake_clean_target.cmake Loading source files for package ngs... [ 10%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -MF CMakeFiles/tui.dir/tui.c.o.d -o CMakeFiles/tui.dir/tui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -E cmake_link_script CMakeFiles/kxml.dir/link.txt --verbose=1 [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -MF CMakeFiles/fastqloader.dir/common-reader.c.o.d -o CMakeFiles/fastqloader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -MF CMakeFiles/fastqloader.dir/fastq-reader.c.o.d -o CMakeFiles/fastqloader.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c /usr/bin/ar qc ../../ilib/libkxml.a CMakeFiles/kxml.dir/xml.c.o "CMakeFiles/kxml.dir/xtoc-parsexml.c.o" CMakeFiles/kxml.dir/xtoc.c.o /usr/bin/ranlib ../../ilib/libkxml.a [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReference.cpp [ 12%] Built target kxml /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_BuildVersion.dir/link.d "CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o" -o ../../../test-bin/Test_Drivertool_BuildVersion make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 12%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -MF CMakeFiles/fastqloader.dir/id2name.c.o.d -o CMakeFiles/fastqloader.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_DB_ReadCollection.c [ 12%] Built target Test_Drivertool_BuildVersion [ 12%] Linking CXX executable ../../../test-bin/Test_Drivertool_UUID cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_UUID.dir/link.txt --verbose=1 [ 12%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/AlignmentItf.cpp [ 12%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlob.cpp [ 12%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEventIterator.cpp [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroup.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -MF CMakeFiles/ngs.dir/SRA_Read.c.o.d -o CMakeFiles/ngs.dir/SRA_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Read.c [ 12%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o -MF CMakeFiles/tui.dir/tui_dlg.c.o.d -o CMakeFiles/tui.dir/tui_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventIteratorItf.cpp make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/depend [ 12%] Linking CXX executable ../../../test-bin/Test_Drivertool_Accession [ 12%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_Accession.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o -MF CMakeFiles/sratools.dir/command-line.cpp.o.d -o CMakeFiles/sratools.dir/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/fastq-dump.dir/DependInfo.cmake "--color=" [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentIteratorItf.cpp [ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o -MF CMakeFiles/sratools.dir/run-source.cpp.o.d -o CMakeFiles/sratools.dir/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp [ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o cd 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CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadCollectionItf.cpp [ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o [ 13%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o -MF CMakeFiles/fastq-dump.dir/factory.c.o.d -o CMakeFiles/fastq-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c [ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEvent.cpp [ 13%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o -MF CMakeFiles/fastq-dump.dir/fasta_dump.c.o.d -o CMakeFiles/fastq-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c [ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/AlignmentIterator.cpp [ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -MF CMakeFiles/sratools.dir/proc.cpp.o.d -o CMakeFiles/sratools.dir/proc.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_UUID.dir/link.d "CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o" -o ../../../test-bin/Test_Drivertool_UUID make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 14%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadItf.cpp [ 14%] Built target Test_Drivertool_UUID [ 14%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Alignment.cpp Constructing Javadoc information... /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_Accession.dir/link.d "CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o" -o ../../../test-bin/Test_Drivertool_Accession make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 14%] Built target Test_Drivertool_Accession [ 14%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o -MF CMakeFiles/fastq-dump.dir/core.c.o.d -o CMakeFiles/fastq-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroupIterator.cpp [ 15%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadIterator.cpp [ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Read.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Read.cpp make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadGroupItf.cpp [ 16%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StatisticsItf.cpp [ 16%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/FragmentItf.cpp [ 16%] Building C object libs/loader/CMakeFiles/loader.dir/mmarray.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/mmarray.c.o -MF CMakeFiles/loader.dir/mmarray.c.o.d -o CMakeFiles/loader.dir/mmarray.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/mmarray.c [ 16%] Linking C static library ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -P CMakeFiles/fastqloader.dir/cmake_clean_target.cmake [ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentItf.cpp [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StringItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastqloader.dir/link.txt --verbose=1 [ 17%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -MF CMakeFiles/fastq-dump.dir/fastq.c.o.d -o CMakeFiles/fastq-dump.dir/fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fastq.c [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/Refcount.cpp [ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadItf.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-makedb.dir/link.d "CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o" -o ../../../test-bin/ngs-makedb -Wl,-Bstatic -lktst -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-checklookup.dir/link.d "CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o" -o ../../../../../test-bin/idx-text-checklookup /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Built target idx-text-checklookup [ 17%] Built target ngs-makedb [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o [ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadCollection.c /usr/bin/ar qc ../../../ilib/libfastqloader.a "CMakeFiles/fastqloader.dir/spot-assembler.c.o" "CMakeFiles/fastqloader.dir/common-writer.c.o" "CMakeFiles/fastqloader.dir/sequence-writer.c.o" "CMakeFiles/fastqloader.dir/common-reader.c.o" "CMakeFiles/fastqloader.dir/fastq-reader.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o" CMakeFiles/fastqloader.dir/id2name.c.o /usr/bin/ranlib ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbAlignment.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Linking CXX static library ../../ilib/libgeneral-writer.a [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -P CMakeFiles/general-writer.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrorMsg.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void printEnvironment(bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void testing_5()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ^ [ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/FragmentItf.cpp [ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -MF CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o.d -o CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/NGS-VDB.cpp [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o [ 17%] Built target fastqloader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReferenceSequence.c [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o [ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StatisticsItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/FragmentIterator.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-writer.dir/link.txt --verbose=1 [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrBlock.cpp [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -MF CMakeFiles/ngs.dir/NGS_Statistics.c.o.d -o CMakeFiles/ngs.dir/NGS_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Statistics.c [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Fragment.cpp /usr/bin/ar qc ../../ilib/libgeneral-writer.a "CMakeFiles/general-writer.dir/general-writer.cpp.o" "CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o" /usr/bin/ranlib ../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Statistics.cpp [ 17%] Built target general-writer [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/StringRef.cpp [ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupIteratorItf.cpp [ 18%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PackageItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PackageItf.cpp [ 18%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o -MF CMakeFiles/sff-dump.dir/fasta_dump.c.o.d -o CMakeFiles/sff-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c [ 18%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupItf.cpp [ 18%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceItf.cpp [ 18%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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[removal] finalize() in Object has been deprecated and marked for removal protected void finalize () ^ [ 18%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -E cmake_link_script CMakeFiles/diagnose.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/illumina-dump.dir/DependInfo.cmake "--color=" [ 18%] Building C object libs/loader/CMakeFiles/loader.dir/reference-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -MF CMakeFiles/loader.dir/reference-writer.c.o.d -o CMakeFiles/loader.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/reference-writer.c make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/depend /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o -MF CMakeFiles/sratools.dir/SDL-response.cpp.o.d -o CMakeFiles/sratools.dir/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o -MF CMakeFiles/abi-dump.dir/factory.c.o.d -o CMakeFiles/abi-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c [ 18%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o [ 18%] Built target diagnose In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp:36: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong 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tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o -MF CMakeFiles/sratools.dir/build-version.cpp.o.d -o CMakeFiles/sratools.dir/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp [ 19%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o -MF CMakeFiles/tui.dir/tui_dlg_helper.c.o.d -o CMakeFiles/tui.dir/tui_dlg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg_helper.c [ 20%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o -MF CMakeFiles/sratools.dir/file-path.posix.cpp.o.d -o CMakeFiles/sratools.dir/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp Creating destination directory: "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/" [ 20%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX 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CMakeFiles/tui.dir/tui_menu.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_menu.c make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/depend make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup 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tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o -MF CMakeFiles/tui.dir/tui_std_dlg.c.o.d -o CMakeFiles/tui.dir/tui_std_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_std_dlg.c [ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 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tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/dyn_string.c.o -MF CMakeFiles/sra-pileup.dir/dyn_string.c.o.d -o 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o -MF CMakeFiles/tui.dir/tui_widget.c.o.d -o CMakeFiles/tui.dir/tui_widget.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget.c [ 22%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o Building index for all the packages and classes... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o -MF CMakeFiles/tui.dir/tui_widget_button.c.o.d -o CMakeFiles/tui.dir/tui_widget_button.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_button.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StringItf.cpp [ 22%] Linking CXX executable ../../../test-bin/Test_Drivertool_CommandLine [ 22%] Linking CXX static library ../../../ilib/libngs-adapt-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -P CMakeFiles/ngs-adapt-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_CommandLine.dir/link.txt --verbose=1 [ 22%] Linking CXX static library ../../ilib/libngs-vdb.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -P CMakeFiles/ngs-vdb.dir/cmake_clean_target.cmake Standard Doclet version 21.0.5+11-Debian-1 Building tree for all the packages and classes... [ 22%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o -MF CMakeFiles/sam-dump.dir/perf_log.c.o.d -o CMakeFiles/sam-dump.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/depend [ 22%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-adapt-c++.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -MF CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o.d -o CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cmdline_cmn.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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-fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -MF CMakeFiles/loader.dir/sequence-writer.c.o.d -o CMakeFiles/loader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/sequence-writer.c [ 23%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -MF CMakeFiles/sra-pileup.dir/out_redir.c.o.d -o CMakeFiles/sra-pileup.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-vdb.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 23%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o [ 23%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -MF CMakeFiles/fasterq-dump.dir/helper.c.o.d -o CMakeFiles/fasterq-dump.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/helper.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -MF CMakeFiles/ngs.dir/NGS_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_PileupEvent.c /usr/bin/ar qc ../../../ilib/libngs-adapt-c++.a "CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-adapt-c++.a make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 23%] Linking CXX static library ../../../../ilib/libngs-bind-c++.a [ 23%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o [ 23%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o -MF CMakeFiles/sra-pileup.dir/perf_log.c.o.d -o CMakeFiles/sra-pileup.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o -MF CMakeFiles/ngs.dir/NGS_Pileup.c.o.d -o CMakeFiles/ngs.dir/NGS_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Pileup.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -P CMakeFiles/ngs-bind-c++.dir/cmake_clean_target.cmake [ 23%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadIteratorItf.cpp [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceIteratorItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f 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-Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o -MF CMakeFiles/ngs-disp.dir/VTable.cpp.o.d -o CMakeFiles/ngs-disp.dir/VTable.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/VTable.cpp [ 24%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o [ 24%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o -MF CMakeFiles/abi-dump.dir/fasta_dump.c.o.d -o CMakeFiles/abi-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o -MF CMakeFiles/fasterq-dump.dir/arg_helper.c.o.d -o CMakeFiles/fasterq-dump.dir/arg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/arg_helper.c [ 24%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -MF CMakeFiles/fasterq-dump.dir/dflt_defline.c.o.d -o CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/dflt_defline.c [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StatisticsItf.cpp [ 24%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -MF CMakeFiles/sam-dump.dir/rna_splice_log.c.o.d -o CMakeFiles/sam-dump.dir/rna_splice_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/rna_splice_log.c [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceSequenceItf.cpp /usr/bin/ar qc ../../../../ilib/libngs-bind-c++.a "CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-c++.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_CommandLine.dir/link.d 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tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o -MF CMakeFiles/sam-dump.dir/sam-dump-opts.c.o.d -o 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tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o -MF CMakeFiles/sratools.dir/proc.posix.cpp.o.d -o CMakeFiles/sratools.dir/proc.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.posix.cpp [ 24%] Linking C static library ../../ilib/libloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -P CMakeFiles/loader.dir/cmake_clean_target.cmake [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk 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-DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr1.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr1.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-hdr1.c /usr/bin/ar qc ../../ilib/libloader.a CMakeFiles/loader.dir/progressbar.c.o "CMakeFiles/loader.dir/loader-file.c.o" "CMakeFiles/loader.dir/loader-meta.c.o" "CMakeFiles/loader.dir/queue-file.c.o" "CMakeFiles/loader.dir/alignment-writer.c.o" "CMakeFiles/loader.dir/common-reader.c.o" "CMakeFiles/loader.dir/common-writer.c.o" CMakeFiles/loader.dir/mmarray.c.o "CMakeFiles/loader.dir/reference-writer.c.o" "CMakeFiles/loader.dir/sequence-writer.c.o" /usr/bin/ranlib ../../ilib/libloader.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 25%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o [ 25%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -MF CMakeFiles/tui.dir/tui_widget_grid.c.o.d -o CMakeFiles/tui.dir/tui_widget_grid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_grid.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -MF CMakeFiles/ngs.dir/NGS_Alignment.c.o.d -o CMakeFiles/ngs.dir/NGS_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Alignment.c [ 25%] Built target loader [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o -MF CMakeFiles/sra-pileup.dir/cg_tools.c.o.d -o CMakeFiles/sra-pileup.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o -MF CMakeFiles/sam-dump.dir/matecache.c.o.d -o CMakeFiles/sam-dump.dir/matecache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/matecache.c [ 25%] Linking C executable ../../../bin/sff-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-dump.dir/link.txt --verbose=1 [ 25%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o -MF CMakeFiles/abi-dump.dir/core.c.o.d -o CMakeFiles/abi-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 25%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o -MF CMakeFiles/abi-dump.dir/abi.c.o.d -o CMakeFiles/abi-dump.dir/abi.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/abi.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:140: warning: no comment static int all = primaryAlignment | secondaryAlignment; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:176: warning: no comment static int clipLeft = 0; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:177: warning: no comment static int clipRight = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:132: warning: no comment static int maxMapQuality = 8; // pass alignments with mappingQuality <= param ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:131: warning: no comment static int minMapQuality = 4; // pass alignments with mappingQuality >= param ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:133: warning: no comment static int noWraparound = 16; // do not include leading wrapped around alignments to circular references ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:130: warning: no comment static int passDuplicates = 2; // either a PCR or optical duplicate ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:129: warning: no comment static int passFailed = 1; // reads rejected due to platform/vendor quality criteria ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:138: warning: no comment static int primaryAlignment = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:139: warning: no comment static int secondaryAlignment = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:134: warning: no comment static int startWithinSlice = 32; // change slice intersection criteria so that start pos is within slice ^ [ 25%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o -MF CMakeFiles/tui.dir/tui_widget_inputline.c.o.d -o CMakeFiles/tui.dir/tui_widget_inputline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_inputline.c [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/read_fkt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/read_fkt.c.o -MF CMakeFiles/sam-dump.dir/read_fkt.c.o.d -o CMakeFiles/sam-dump.dir/read_fkt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/read_fkt.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o [ 25%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o -MF CMakeFiles/sra-pileup.dir/report_deletes.c.o.d -o CMakeFiles/sra-pileup.dir/report_deletes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/report_deletes.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o -MF CMakeFiles/fasterq-dump.dir/inspector.c.o.d -o CMakeFiles/fasterq-dump.dir/inspector.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c [ 25%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o -MF CMakeFiles/fasterq-dump.dir/err_msg.c.o.d -o CMakeFiles/fasterq-dump.dir/err_msg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/err_msg.c [ 26%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o -MF CMakeFiles/sam-dump.dir/sam-aligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-aligned.c [ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-dump.dir/link.d "CMakeFiles/sff-dump.dir/factory.c.o" "CMakeFiles/sff-dump.dir/fasta_dump.c.o" "CMakeFiles/sff-dump.dir/core.c.o" "CMakeFiles/sff-dump.dir/sff.c.o" -o ../../../bin/sff-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -MF CMakeFiles/fasterq-dump.dir/file_tools.c.o.d -o CMakeFiles/fasterq-dump.dir/file_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_tools.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-dump sff-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3.0.9 sff-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3 sff-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o -MF CMakeFiles/fasterq-dump.dir/var_fmt.c.o.d -o CMakeFiles/fasterq-dump.dir/var_fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/var_fmt.c [ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o [ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -MF CMakeFiles/ngs.dir/NGS_Reference.c.o.d -o CMakeFiles/ngs.dir/NGS_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Reference.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o -MF CMakeFiles/fasterq-dump.dir/flex_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/flex_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/flex_printer.c [ 26%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o -MF CMakeFiles/tui.dir/tui_widget_label.c.o.d -o CMakeFiles/tui.dir/tui_widget_label.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_label.c [ 26%] Built target sff-dump [ 26%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX 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Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o -MF CMakeFiles/tui.dir/tui_widget_progress.c.o.d -o CMakeFiles/tui.dir/tui_widget_progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_progress.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o -MF CMakeFiles/ngs.dir/NGS_Read.c.o.d -o CMakeFiles/ngs.dir/NGS_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Read.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 27%] Linking CXX static library ../../../../ilib/libngs-bind-python.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -P CMakeFiles/ngs-bind-python.dir/cmake_clean_target.cmake [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceSequence.c [ 27%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o [ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_radiobox.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o -MF CMakeFiles/vdb-validate.dir/main.c.o.d -o CMakeFiles/vdb-validate.dir/main.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/main.c [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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-Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o -MF CMakeFiles/ngs.dir/NGS_Cursor.c.o.d -o CMakeFiles/ngs.dir/NGS_Cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Cursor.c [ 28%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o -MF CMakeFiles/sra-pileup.dir/ref_regions.c.o.d -o CMakeFiles/sra-pileup.dir/ref_regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_regions.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 28%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_FragmentItf.cpp [ 28%] Building CXX object tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -MF CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o.d -o CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-corrupt.cpp [ 28%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o -MF CMakeFiles/sra-pileup.dir/4na_ascii.c.o.d -o CMakeFiles/sra-pileup.dir/4na_ascii.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/4na_ascii.c /usr/bin/ar qc ../../../../ilib/libngs-bind-python.a "CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-python.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/DependInfo.cmake "--color=" [ 28%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -MF CMakeFiles/tui.dir/tui_widget_spin_edit.c.o.d -o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_spin_edit.c [ 28%] Built target ngs-bind-python make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build [ 28%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o [ 29%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o -MF CMakeFiles/tui.dir/tui_widget_string_list.c.o.d -o CMakeFiles/tui.dir/tui_widget_string_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_string_list.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker_0.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker_0.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 29%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o -MF CMakeFiles/vdb-validate.dir/check-redact.c.o.d -o CMakeFiles/vdb-validate.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-redact.c [ 29%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-tools.c make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/DependInfo.cmake "--color=" [ 29%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/depend [ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o cd 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-I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -MF CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o.d -o CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-decrypt.c make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/depend make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat/CMakeFiles/sra-stat.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/AlignmentIterator.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain/CMakeFiles/rcexplain.dir/DependInfo.cmake "--color=" [ 29%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -MF CMakeFiles/tui.dir/tui_widget_tabhdr.c.o.d -o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_tabhdr.c make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 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[ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -MF CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o.d -o CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-encrypt.c [ 29%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -MF CMakeFiles/vdb-decrypt.dir/shared.c.o.d -o CMakeFiles/vdb-decrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/rcexplain/CMakeFiles/rcexplain.dir/rcexplain.c.o -MF CMakeFiles/rcexplain.dir/rcexplain.c.o.d -o CMakeFiles/rcexplain.dir/rcexplain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain/rcexplain.c [ 30%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o [ 30%] Linking C executable ../../../bin/fastq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -MF CMakeFiles/vdb-encrypt.dir/shared.c.o.d -o CMakeFiles/vdb-encrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-dump.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:38: warning: no main description * @return What went wrong ^ [ 31%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o [ 31%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o -MF CMakeFiles/fasterq-dump.dir/temp_dir.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_dir.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:49: warning: no comment public ErrorMsg () ^ [ 31%] Linking CXX static library ../../../ilib/libngs-disp.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -P CMakeFiles/ngs-disp.dir/cmake_clean_target.cmake /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:53: warning: no comment public ErrorMsg ( String message ) ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:58: warning: no comment public ErrorMsg ( ErrorMsg obj ) ^ [ 31%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -MF CMakeFiles/fasterq-dump.dir/progress_thread.c.o.d -o CMakeFiles/fasterq-dump.dir/progress_thread.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/progress_thread.c [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o -MF CMakeFiles/srapath.dir/line_iter.c.o.d -o CMakeFiles/srapath.dir/line_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/line_iter.c [ 32%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o -MF CMakeFiles/sra-stat.dir/sra.c.o.d -o CMakeFiles/sra-stat.dir/sra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-disp.dir/link.txt --verbose=1 [ 32%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o -MF CMakeFiles/tui.dir/linux/systui.c.o.d -o CMakeFiles/tui.dir/linux/systui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/linux/systui.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Fragment.html... [ 32%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o -MF CMakeFiles/sra-stat.dir/sra-stat.c.o.d -o CMakeFiles/sra-stat.dir/sra-stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra-stat.c [ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Package.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-dump.dir/link.d "CMakeFiles/fastq-dump.dir/factory.c.o" "CMakeFiles/fastq-dump.dir/fasta_dump.c.o" "CMakeFiles/fastq-dump.dir/core.c.o" "CMakeFiles/fastq-dump.dir/fastq.c.o" -o ../../../bin/fastq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-dump fastq-dump.3.0.9 [ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o [ 32%] Linking C executable ../../../bin/illumina-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3.0.9 fastq-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_StatisticsItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3 fastq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fastq-dump-driver [ 32%] Linking C executable ../../../bin/rcexplain make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cmake -E cmake_link_script CMakeFiles/rcexplain.dir/link.txt --verbose=1 [ 32%] Built target fastq-dump /usr/bin/ar qc ../../../ilib/libngs-disp.a "CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "CMakeFiles/ngs-disp.dir/VTable.cpp.o" "CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-disp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/FragmentIterator.html... [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o -MF CMakeFiles/srapath.dir/repository-mgr.c.o.d -o CMakeFiles/srapath.dir/repository-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/repository-mgr.c [ 32%] Built target ngs-disp Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/LibDependencies.html... [ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_String.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: no comment public class LibDependencies { ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:34: warning: no comment public final static String NCBI_VDB = "ncbi-ngs"; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:30: warning: no comment public final static String NGS_SDK = "ngs-sdk"; ^ [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/services.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: use of default constructor, which does not provide a comment public class LibDependencies { ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/services.c.o -MF CMakeFiles/srapath.dir/services.c.o.d -o CMakeFiles/srapath.dir/services.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/services.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c: In function 'insp_report': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:1165:14: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized] 1165 | rc = KOutMsg( "... is %s\n", s_acc_type ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:248:18: note: 'res' was declared here 248 | const char * res; | ^~~ [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -MF CMakeFiles/srapath.dir/cgi_request.c.o.d -o CMakeFiles/srapath.dir/cgi_request.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/cgi_request.c [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o -MF CMakeFiles/srapath.dir/srapath.c.o.d -o CMakeFiles/srapath.dir/srapath.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/srapath.c [ 32%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o -MF CMakeFiles/ngs.dir/NGS_Refcount.c.o.d -o CMakeFiles/ngs.dir/NGS_Refcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Refcount.c [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o -MF CMakeFiles/sam-dump.dir/sam-unaligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-unaligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-unaligned.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/NGS.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rcexplain.dir/link.d CMakeFiles/rcexplain.dir/rcexplain.c.o -o ../../../bin/rcexplain /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-dump.dir/link.d "CMakeFiles/illumina-dump.dir/factory.c.o" "CMakeFiles/illumina-dump.dir/fasta_dump.c.o" "CMakeFiles/illumina-dump.dir/core.c.o" "CMakeFiles/illumina-dump.dir/illumina.c.o" -o ../../../bin/illumina-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Refcount.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rcexplain.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rcexplain rcexplain.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-dump illumina-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3.0.9 illumina-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3.0.9 rcexplain.3 [ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ErrorMsg.cpp [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3 illumina-dump [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: no comment public class NGS ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o -MF CMakeFiles/ngs.dir/NGS_Id.c.o.d -o CMakeFiles/ngs.dir/NGS_Id.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Id.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3 rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: use of default constructor, which does not provide a comment public class NGS ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -MF CMakeFiles/ngs.dir/NGS_String.c.o.d -o CMakeFiles/ngs.dir/NGS_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_String.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:133: warning: no comment public static void main(String[] args) { ^ [ 33%] Built target illumina-dump [ 33%] Linking C executable ../../../bin/abi-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-dump.dir/link.txt --verbose=1 [ 33%] Built target rcexplain [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -MF CMakeFiles/ngs.dir/NGS_ErrBlock.c.o.d -o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ErrBlock.c [ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -MF CMakeFiles/fasterq-dump.dir/cleanup_task.c.o.d -o CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cleanup_task.c [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -MF CMakeFiles/sam-dump.dir/md_flag.c.o.d -o CMakeFiles/sam-dump.dir/md_flag.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/md_flag.c [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlob.c [ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o -MF CMakeFiles/fasterq-dump.dir/index.c.o.d -o CMakeFiles/fasterq-dump.dir/index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/index.c [ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_writer.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Package.html... [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o -MF CMakeFiles/sra-pileup.dir/walk_debug.c.o.d -o CMakeFiles/sra-pileup.dir/walk_debug.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/walk_debug.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:37: warning: no main description * @return package version as a 1..3 part string ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:33: warning: use of default constructor, which does not provide a comment public class Package ^ make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-dump.dir/link.d "CMakeFiles/abi-dump.dir/factory.c.o" "CMakeFiles/abi-dump.dir/fasta_dump.c.o" "CMakeFiles/abi-dump.dir/core.c.o" "CMakeFiles/abi-dump.dir/abi.c.o" -o ../../../bin/abi-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Pileup.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-dump abi-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3.0.9 abi-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3 abi-dump [ 33%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o [ 34%] Linking C executable ../../../bin/vdb-encrypt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_reader.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_reader.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-encrypt.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Pileup.java:58: warning: no main description * @return base at current Reference position ^ [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-formats.c [ 34%] Building C object tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o [ 34%] Built target abi-dump [ 34%] Linking C static library ../../../../ilib/libtui.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o -MF CMakeFiles/kdbmeta.dir/kdbmeta.c.o.d -o CMakeFiles/kdbmeta.dir/kdbmeta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/kdbmeta/kdbmeta.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui.dir/cmake_clean_target.cmake [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -MF CMakeFiles/fasterq-dump.dir/locked_file_list.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_file_list.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEvent.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:118: warning: no comment static int alignment_minus_strand = 0x20; ^ [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:116: warning: no comment static int alignment_start = 0x80; ^ [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:117: warning: no comment make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/depend static int alignment_stop = 0x40; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o -MF CMakeFiles/fasterq-dump.dir/locked_value.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_value.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_value.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:98: warning: no comment static int deletion = 2; cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o -MF CMakeFiles/fasterq-dump.dir/file_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/file_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_printer.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info/CMakeFiles/align-info.dir/DependInfo.cmake "--color=" ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:104: warning: no comment static int insertion = 0x08; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:112: warning: no comment static int insertion_before_deletion = insertion | deletion; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:107: warning: no comment static int insertion_before_match = insertion | match; ^ [ 34%] Linking C executable ../../../bin/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:108: warning: no comment static int insertion_before_mismatch = insertion | mismatch; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:180: warning: no comment static int intron_minus = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:179: warning: no comment static int intron_plus = 1; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-decrypt.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:181: warning: no comment static int intron_unknown = 3; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:97: warning: no comment static int mismatch = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:191: warning: no comment static int read_gap = 5; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:186: warning: no comment static int read_overlap = 4; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:113: warning: no comment static int replacement = insertion_before_deletion; ^ make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra/CMakeFiles/test-sra.dir/DependInfo.cmake "--color=" [ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlobIterator.c make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/build [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o -MF CMakeFiles/sra-pileup.dir/pileup_counters.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_counters.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_counters.c make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make 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/usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-encrypt.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/align-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cache-mgr\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -MF CMakeFiles/cache-mgr.dir/cache-mgr.c.o.d -o CMakeFiles/cache-mgr.dir/cache-mgr.c.o -c 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[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o [ 34%] Built target vdb-decrypt [ 34%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o -MF CMakeFiles/bam-load.dir/bam-loader.c.o.d -o CMakeFiles/bam-load.dir/bam-loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam-loader.c [ 34%] Linking CXX executable ../../../test-bin/Test_Drivertool_JsonParsing cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_JsonParsing.dir/link.txt --verbose=1 [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o -MF CMakeFiles/sra-pileup.dir/pileup_index.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_index.c make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/build [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-fastq.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Read.html... make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar.dir/DependInfo.cmake "--color=" [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o -MF CMakeFiles/samview.dir/bam.c.o.d -o CMakeFiles/samview.dir/bam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-inspect.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_report': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:702:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 702 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:699:17: note: 'data' declared here 699 | report_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:35: warning: no comment public interface Read ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:696:41: note: 'octx' declared here 696 | static rc_t perform_report( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_unlock': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:905:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 905 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:902:17: note: 'data' declared here 902 | unlock_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:899:41: note: 'octx' declared here 899 | static rc_t perform_unlock( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_clear': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:990:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 990 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:987:16: note: 'data' declared here 987 | clear_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:984:40: note: 'octx' declared here 984 | static rc_t perform_clear( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:79: warning: no comment static int aligned = fullyAligned | partiallyAligned; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:81: warning: no comment static int all = aligned | unaligned; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:78: warning: no comment static int partiallyAligned = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:80: warning: no comment static int unaligned = 4; ^ [ 34%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -MF CMakeFiles/kar.dir/kar-path.c.o.d -o CMakeFiles/kar.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o [ 34%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o [ 34%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o -MF CMakeFiles/sra-info.dir/formatter.cpp.o.d -o CMakeFiles/sra-info.dir/formatter.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/formatter.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o -MF CMakeFiles/sra-pileup.dir/pileup_indels.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_indels.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_indels.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -MF CMakeFiles/sra-info.dir/sra-info.cpp.o.d -o CMakeFiles/sra-info.dir/sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/sra-info.cpp [ 34%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o -MF CMakeFiles/test-sra.dir/unix/PrintOS.c.o.d -o CMakeFiles/test-sra.dir/unix/PrintOS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/unix/PrintOS.c [ 34%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -MF CMakeFiles/kar.dir/kar-args.c.o.d -o CMakeFiles/kar.dir/kar-args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-args.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -MF CMakeFiles/vdb-dump.dir/vdb_info.c.o.d -o CMakeFiles/vdb-dump.dir/vdb_info.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb_info.c [ 34%] Linking CXX static library ../../../../ilib/libngs-bind-java.a [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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CMakeFiles/ngs-bind-java.dir/cmake_clean_target.cmake Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadCollection.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:88: warning: no main description * @param spec the name of a contained read group ^ [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:121: warning: no main description * @param spec the name of a contained Reference ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o -MF CMakeFiles/samview.dir/sam.c.o.d -o CMakeFiles/samview.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -MF CMakeFiles/fasterq-dump.dir/merge_sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/merge_sorter.c [ 34%] Linking C executable ../../../bin/srapath Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cmake -E cmake_link_script CMakeFiles/srapath.dir/link.txt --verbose=1 [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-java.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o -MF CMakeFiles/fasterq-dump.dir/sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/sorter.c [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o -MF CMakeFiles/bam-load.dir/sam.c.o.d -o CMakeFiles/bam-load.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o -MF CMakeFiles/bam-load.dir/bam.c.o.d -o CMakeFiles/bam-load.dir/bam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_JsonParsing.dir/link.d "CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o" -o ../../../test-bin/Test_Drivertool_JsonParsing make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlobIterator.c [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o -MF CMakeFiles/bam-load.dir/alignment-writer.c.o.d -o CMakeFiles/bam-load.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/alignment-writer.c [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -MF CMakeFiles/sra-pileup.dir/pileup_varcount.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_varcount.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroup.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroupIterator.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadIterator.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadIterator.java:34: warning: no comment public interface ReadIterator ^ [ 34%] Built target Test_Drivertool_JsonParsing Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Reference.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srapath.dir/link.d CMakeFiles/srapath.dir/helper.c.o CMakeFiles/srapath.dir/line_iter.c.o "CMakeFiles/srapath.dir/repository-mgr.c.o" CMakeFiles/srapath.dir/services.c.o CMakeFiles/srapath.dir/cgi_request.c.o CMakeFiles/srapath.dir/srapath.c.o -o ../../../bin/srapath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srapath.3.0.9 [ 35%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -MF CMakeFiles/ngs.dir/VByteBlob.c.o.d -o CMakeFiles/ngs.dir/VByteBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/VByteBlob.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srapath srapath.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3.0.9 srapath.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3 srapath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 srapath-driver cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_compiled_ngs-java make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/ar qc ../../../../ilib/libngs-bind-java.a "CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-java.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 35%] Built target srapath [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o [ 35%] Built target ngs-bind-java cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o -MF CMakeFiles/sam-dump.dir/cg_tools.c.o.d -o CMakeFiles/sam-dump.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceIterator.html... [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o [ 35%] Generating CMakeFiles/ngs-java.dir/java_class_filelist Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceSequence.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o -MF CMakeFiles/sra-pileup.dir/pileup_stat.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_stat.c [ 35%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o -MF CMakeFiles/samview.dir/samview.c.o.d -o CMakeFiles/samview.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/samview.c [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -MF CMakeFiles/sra-pileup.dir/pileup_v2.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_v2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_v2.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o -MF CMakeFiles/sra-pileup.dir/sra-pileup.c.o.d -o CMakeFiles/sra-pileup.dir/sra-pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c [ 36%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -MF CMakeFiles/kar.dir/kar.c.o.d -o CMakeFiles/kar.dir/kar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar.c [ 36%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o -MF CMakeFiles/bam-load.dir/reference-writer.c.o.d -o CMakeFiles/bam-load.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/reference-writer.c [ 36%] Linking C executable ../../../bin/align-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-info.dir/link.txt --verbose=1 [ 36%] Creating Java archive ngs-java.jar [ 36%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Statistics.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar @java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o -MF CMakeFiles/bam-load.dir/sequence-writer.c.o.d -o CMakeFiles/bam-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sequence-writer.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:41: warning: no comment static int int64 = 2; ^ [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:43: warning: no comment static int real = 4; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o -MF CMakeFiles/sam-dump.dir/sam-dump.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c [ 37%] Linking C executable ../../../bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:40: warning: no comment static int string = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:42: warning: no comment static int uint64 = 3; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdbmeta.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c:1416:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1416 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ [ 37%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -MF CMakeFiles/fasterq-dump.dir/cmn_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cmn_iter.c [ 37%] Linking C static library ../../../ilib/libngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -P CMakeFiles/ngs.dir/cmake_clean_target.cmake [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -MF CMakeFiles/sam-dump.dir/sam-dump3.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-summary.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-info.dir/link.d "CMakeFiles/align-info.dir/align-info.c.o" -o ../../../bin/align-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-info align-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3.0.9 align-info.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3 align-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-tree.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-summary.html... [ 38%] Built target align-info [ 38%] Linking C executable ../../../bin/cache-mgr [ 38%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cmake -E cmake_link_script CMakeFiles/cache-mgr.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -MF CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/raw_read_iter.c [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -MF CMakeFiles/sam-dump.dir/dyn_string.c.o.d -o CMakeFiles/sam-dump.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/dyn_string.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/build Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-tree.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c:557:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 557 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c: In function 'SAM_Dump_Main': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c:4387:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 4387 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/constant-values.html... [ 38%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o [ 38%] Linking CXX executable ../../../bin/check-corrupt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -MF CMakeFiles/fasterq-dump.dir/special_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/special_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/special_iter.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-corrupt.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdbmeta.dir/link.d CMakeFiles/kdbmeta.dir/kdbmeta.c.o -o ../../../bin/kdbmeta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdbmeta.3.0.9 [ 38%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdbmeta kdbmeta.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o -MF CMakeFiles/kar+.dir/kar-path.c.o.d -o CMakeFiles/kar+.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3.0.9 kdbmeta.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3 kdbmeta /usr/bin/ar qc ../../../ilib/libngs.a "CMakeFiles/ngs.dir/NCBI-NGS.c.o" CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o CMakeFiles/ngs.dir/CSRA1_Reference.c.o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o CMakeFiles/ngs.dir/CSRA1_Read.c.o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o CMakeFiles/ngs.dir/SRA_Statistics.c.o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_Read.c.o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Statistics.c.o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o CMakeFiles/ngs.dir/NGS_Pileup.c.o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o CMakeFiles/ngs.dir/NGS_Alignment.c.o CMakeFiles/ngs.dir/NGS_Reference.c.o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Read.c.o CMakeFiles/ngs.dir/NGS_Fragment.c.o CMakeFiles/ngs.dir/NGS_Cursor.c.o CMakeFiles/ngs.dir/NGS_Refcount.c.o CMakeFiles/ngs.dir/NGS_String.c.o CMakeFiles/ngs.dir/NGS_Id.c.o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o CMakeFiles/ngs.dir/VByteBlob.c.o /usr/bin/ranlib ../../../ilib/libngs.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/serialized-form.html... [ 38%] Built target kdbmeta [ 39%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_ua_iter.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-tree.html... [ 39%] Built target ngs Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index.html... [ 39%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o -MF CMakeFiles/bam-load.dir/mem-bank.cpp.o.d -o CMakeFiles/bam-load.dir/mem-bank.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/mem-bank.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cache-mgr.dir/link.d "CMakeFiles/cache-mgr.dir/cache-mgr.c.o" -o ../../../bin/cache-mgr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cache-mgr.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cache-mgr cache-mgr.3.0.9 [ 40%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -MF CMakeFiles/kar+.dir/kar+args.c.o.d -o CMakeFiles/kar+.dir/kar+args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+args.c make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+meta.dir/DependInfo.cmake "--color=" make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Building index for all classes... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allclasses-index.html... [ 40%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_csra_iter.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 40%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o -MF CMakeFiles/fasterq-dump.dir/align_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/align_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/align_iter.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allpackages-index.html... [ 40%] Built target cache-mgr [ 40%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o -MF CMakeFiles/kar+.dir/kar+print.c.o.d -o CMakeFiles/kar+.dir/kar+print.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+print.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/build make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index-all.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/DependInfo.cmake "--color=" [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -MF CMakeFiles/sra-sort.dir/caps.c.o.d -o CMakeFiles/sra-sort.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-corrupt.dir/link.d "CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o" -o ../../../bin/check-corrupt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-corrupt.3.0.9 [ 41%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -MF CMakeFiles/kar+meta.dir/kar+util.c.o.d -o CMakeFiles/kar+meta.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-corrupt check-corrupt.3.0.9 [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -MF CMakeFiles/sra-sort.dir/mem.c.o.d -o CMakeFiles/sra-sort.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -MF CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o.d -o CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dump-blob-boundaries.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3.0.9 check-corrupt.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3 check-corrupt [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o -MF CMakeFiles/sra-sort.dir/membank.c.o.d -o CMakeFiles/sra-sort.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c [ 41%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -MF CMakeFiles/kar+meta.dir/kar+meta.c.o.d -o CMakeFiles/kar+meta.dir/kar+meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+meta.c [ 41%] Built target check-corrupt [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -MF CMakeFiles/sra-sort-cg.dir/caps.c.o.d -o CMakeFiles/sra-sort-cg.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c [ 42%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-summary.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/help-doc.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 42%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/sff-load.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -MF CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/simple_fasta_iter.c [ 42%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o [ 42%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o [ 42%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -MF CMakeFiles/sra-sort.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o -MF CMakeFiles/fasterq-dump.dir/db_join.c.o.d -o CMakeFiles/fasterq-dump.dir/db_join.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/db_join.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o -MF CMakeFiles/latf-load.dir/spot-assembler.c.o.d -o CMakeFiles/latf-load.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c 52 warnings make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/build [ 42%] Built target ngs-java make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 43%] Linking C executable ../../../bin/vdb-validate make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-validate.dir/link.txt --verbose=1 [ 43%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o [ 43%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o -MF CMakeFiles/sra-sort-cg.dir/mem.c.o.d -o CMakeFiles/sra-sort-cg.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o -MF CMakeFiles/sff-load.dir/pstring.c.o.d -o CMakeFiles/sff-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 44%] Built target ngs-doc_javadoc [ 45%] Linking C executable ../../../bin/dump-blob-boundaries [ 45%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o -MF CMakeFiles/latf-load.dir/common-writer.c.o.d -o CMakeFiles/latf-load.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/dump-blob-boundaries.dir/link.txt --verbose=1 [ 45%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o -MF CMakeFiles/sra-sort.dir/except.c.o.d -o 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c [ 45%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o -MF CMakeFiles/sff-load.dir/common-xml.c.o.d -o CMakeFiles/sff-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/fastq-load.dir/DependInfo.cmake "--color=" [ 45%] Linking C executable ../../../bin/sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-pileup.dir/link.txt --verbose=1 [ 45%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o -MF CMakeFiles/sra-sort.dir/map-file.c.o.d -o CMakeFiles/sra-sort.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/srf-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-validate.dir/link.d "CMakeFiles/vdb-validate.dir/main.c.o" "CMakeFiles/vdb-validate.dir/vdb-validate.c.o" "CMakeFiles/vdb-validate.dir/check-redact.c.o" -o ../../../bin/vdb-validate /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 46%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o [ 46%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-validate.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -MF CMakeFiles/sra-sort-cg.dir/membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -MF CMakeFiles/fastq-load.dir/pstring.c.o.d -o CMakeFiles/fastq-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-validate vdb-validate.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3.0.9 vdb-validate.3 /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3DefaultRowEst': cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3 vdb-validate make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/depend [ 46%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/abi-load.dir/DependInfo.cmake "--color=" [ 46%] Built target vdb-validate cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o -MF CMakeFiles/srf-load.dir/pstring.c.o.d -o CMakeFiles/srf-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~ [ 47%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -MF CMakeFiles/latf-load.dir/sequence-writer.c.o.d -o CMakeFiles/latf-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/build [ 47%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o -MF CMakeFiles/srf-load.dir/common-xml.c.o.d -o CMakeFiles/srf-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c [ 47%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -MF CMakeFiles/latf-load.dir/common-reader.c.o.d -o CMakeFiles/latf-load.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/dump-blob-boundaries.dir/link.d "CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o" -o ../../../bin/dump-blob-boundaries /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-pileup.dir/link.d "CMakeFiles/sra-pileup.dir/dyn_string.c.o" "CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o" "CMakeFiles/sra-pileup.dir/out_redir.c.o" "CMakeFiles/sra-pileup.dir/perf_log.c.o" "CMakeFiles/sra-pileup.dir/reref.c.o" "CMakeFiles/sra-pileup.dir/cg_tools.c.o" "CMakeFiles/sra-pileup.dir/report_deletes.c.o" "CMakeFiles/sra-pileup.dir/ref_regions.c.o" "CMakeFiles/sra-pileup.dir/4na_ascii.c.o" "CMakeFiles/sra-pileup.dir/ref_walker_0.c.o" "CMakeFiles/sra-pileup.dir/ref_walker.c.o" "CMakeFiles/sra-pileup.dir/walk_debug.c.o" "CMakeFiles/sra-pileup.dir/pileup_counters.c.o" "CMakeFiles/sra-pileup.dir/pileup_index.c.o" "CMakeFiles/sra-pileup.dir/pileup_indels.c.o" "CMakeFiles/sra-pileup.dir/pileup_varcount.c.o" "CMakeFiles/sra-pileup.dir/pileup_stat.c.o" "CMakeFiles/sra-pileup.dir/pileup_v2.c.o" "CMakeFiles/sra-pileup.dir/sra-pileup.c.o" -o ../../../bin/sra-pileup /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:11540: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~~~~~ [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-blob-boundaries.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-pileup.3.0.9 [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o -MF CMakeFiles/sff-load.dir/experiment-xml.c.o.d -o CMakeFiles/sff-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -MF CMakeFiles/abi-load.dir/pstring.c.o.d -o CMakeFiles/abi-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv dump-blob-boundaries dump-blob-boundaries.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-pileup sra-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3.0.9 dump-blob-boundaries.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3.0.9 sra-pileup.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3 sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sra-pileup-driver cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3 dump-blob-boundaries make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o [ 48%] Linking C executable ../../../bin/kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -MF CMakeFiles/sff-load.dir/run-xml.c.o.d -o CMakeFiles/sff-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar.dir/link.txt --verbose=1 make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/illumina-load.dir/DependInfo.cmake "--color=" [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o -MF CMakeFiles/abi-load.dir/common-xml.c.o.d -o CMakeFiles/abi-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ [ 48%] Built target dump-blob-boundaries [ 48%] Built target sra-pileup make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build [ 48%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o -MF CMakeFiles/sra-sort.dir/col-pair.c.o.d -o CMakeFiles/sra-sort.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~~~~~ [ 48%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o -MF CMakeFiles/illumina-load.dir/pstring.c.o.d -o CMakeFiles/illumina-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o -MF CMakeFiles/fastq-load.dir/common-xml.c.o.d -o CMakeFiles/fastq-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c [ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-mmapbank.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar.dir/link.d "CMakeFiles/kar.dir/kar-path.c.o" "CMakeFiles/kar.dir/kar-args.c.o" CMakeFiles/kar.dir/kar.c.o -o ../../../bin/kar /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar.3.0.9 [ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o -MF CMakeFiles/sra-sort-cg.dir/except.c.o.d -o CMakeFiles/sra-sort-cg.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o -MF CMakeFiles/illumina-load.dir/common-xml.c.o.d -o CMakeFiles/illumina-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar kar.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3.0.9 kar.3 [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o -MF CMakeFiles/illumina-load.dir/experiment-xml.c.o.d -o CMakeFiles/illumina-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3 kar make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ [ 49%] Linking C executable ../../../bin/kar+meta [ 49%] Built target kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+meta.dir/link.txt --verbose=1 make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/depend [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/helicos-load.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o -MF CMakeFiles/illumina-load.dir/run-xml.c.o.d -o CMakeFiles/illumina-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o -MF CMakeFiles/illumina-load.dir/loader-file.c.o.d -o CMakeFiles/illumina-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o [ 49%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -MF CMakeFiles/illumina-load.dir/loader-fmt.c.o.d -o CMakeFiles/illumina-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o -MF CMakeFiles/fasterq-dump.dir/temp_registry.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_registry.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_registry.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o -MF CMakeFiles/illumina-load.dir/sra-writer.c.o.d -o CMakeFiles/illumina-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o -MF CMakeFiles/illumina-load.dir/loader.c.o.d -o CMakeFiles/illumina-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o -MF CMakeFiles/helicos-load.dir/pstring.c.o.d -o CMakeFiles/helicos-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+meta.dir/link.d CMakeFiles/kar+meta.dir/kar+util.c.o CMakeFiles/kar+meta.dir/kar+meta.c.o -o ../../../bin/kar+meta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+meta.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o -MF CMakeFiles/sff-load.dir/loader-file.c.o.d -o CMakeFiles/sff-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+meta kar+meta.3.0.9 [ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3.0.9 kar+meta.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3 kar+meta make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 49%] Built target kar+meta [ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -MF CMakeFiles/sra-sort-cg.dir/map-file.c.o.d -o CMakeFiles/sra-sort-cg.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c [ 50%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -MF CMakeFiles/fasterq-dump.dir/copy_machine.c.o.d -o CMakeFiles/fasterq-dump.dir/copy_machine.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/copy_machine.c [ 50%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o -MF CMakeFiles/sff-load.dir/loader-fmt.c.o.d -o CMakeFiles/sff-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 50%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o -MF CMakeFiles/helicos-load.dir/common-xml.c.o.d -o CMakeFiles/helicos-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:3453:44: warning: "/*" within comment [-Wcomment] 3453 | int const logLevel = klogWarn; /*G.assembleWithSecondary ? klogWarn : klogErr; /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:4163:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 4163 | rc = KLoaderMeta_Write(node, progName, __DATE__, "BAM", KAppVersion()); | ^~~~~~~~ [ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c [ 50%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o [ 50%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -MF CMakeFiles/fastq-load.dir/experiment-xml.c.o.d -o CMakeFiles/fastq-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c [ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o -MF CMakeFiles/latf-load.dir/fastq-reader.c.o.d -o CMakeFiles/latf-load.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o -MF CMakeFiles/fastq-load.dir/run-xml.c.o.d -o CMakeFiles/fastq-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o -MF CMakeFiles/srf-load.dir/experiment-xml.c.o.d -o CMakeFiles/srf-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-lex.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o -MF CMakeFiles/fastq-load.dir/loader-file.c.o.d -o CMakeFiles/fastq-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -MF CMakeFiles/abi-load.dir/experiment-xml.c.o.d -o CMakeFiles/abi-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 51%] Linking C executable ../../../bin/kar+ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+.dir/link.txt --verbose=1 [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o -MF CMakeFiles/sff-load.dir/loader.c.o.d -o CMakeFiles/sff-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/DependInfo.cmake "--color=" [ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o [ 52%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o -MF CMakeFiles/illumina-load.dir/illumina-fmt.c.o.d -o CMakeFiles/illumina-load.dir/illumina-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/illumina-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o -MF CMakeFiles/illumina-load.dir/writer-illumina.c.o.d -o CMakeFiles/illumina-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c [ 52%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 52%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o [ 53%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o -MF CMakeFiles/fasterq-dump.dir/concatenator.c.o.d -o CMakeFiles/fasterq-dump.dir/concatenator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/concatenator.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+.dir/link.d "CMakeFiles/kar+.dir/kar-path.c.o" CMakeFiles/kar+.dir/kar+args.c.o CMakeFiles/kar+.dir/kar+print.c.o CMakeFiles/kar+.dir/kar+util.c.o CMakeFiles/kar+.dir/kar+.c.o -o ../../../bin/kar+ /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+ kar+.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3.0.9 kar+.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3 kar+ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 53%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o [ 53%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -MF CMakeFiles/fasterq-dump.dir/ref_inventory.c.o.d -o CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/ref_inventory.c [ 53%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o [ 53%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o -MF CMakeFiles/abi-load.dir/loader-file.c.o.d -o CMakeFiles/abi-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 53%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/loader-imp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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CMakeFiles/test-sra.dir/link.txt --verbose=1 [ 55%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o -MF CMakeFiles/abi-load.dir/sra-writer.c.o.d -o CMakeFiles/abi-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 55%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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../../../bin/samview cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/common-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview.dir/link.txt --verbose=1 [ 56%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c [ 56%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o -MF CMakeFiles/sra-sort.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra.dir/link.d "CMakeFiles/test-sra.dir/test-sra.c.o" "CMakeFiles/test-sra.dir/unix/PrintOS.c.o" -o ../../../bin/test-sra ../../../ilib/libascp.a ../../../ilib/libdiagnose.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-sra.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-sra test-sra.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3.0.9 test-sra.3 [ 56%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3 test-sra make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 56%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 56%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o -MF CMakeFiles/srf-load.dir/run-xml.c.o.d -o CMakeFiles/srf-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 56%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o -MF CMakeFiles/fastq-load.dir/sra-writer.c.o.d -o CMakeFiles/fastq-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 56%] Built target test-sra [ 57%] Linking C executable ../../../bin/vdb-dump /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview.dir/link.d CMakeFiles/samview.dir/bam.c.o CMakeFiles/samview.dir/sam.c.o CMakeFiles/samview.dir/samview.c.o -o ../../../bin/samview /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lz [ 57%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o [ 57%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o -MF CMakeFiles/srf-load.dir/loader-file.c.o.d -o CMakeFiles/srf-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5arrayfile.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview samview.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3.0.9 samview.3 [ 57%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -MF CMakeFiles/srf-load.dir/loader-fmt.c.o.d -o CMakeFiles/srf-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3 samview make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o -MF CMakeFiles/sra-sort.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o [ 57%] Built target samview cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o -MF CMakeFiles/sra-sort.dir/db-pair.c.o.d -o CMakeFiles/sra-sort.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c make -f tools/loaders/cg-load/CMakeFiles/cg-load.dir/build.make tools/loaders/cg-load/CMakeFiles/cg-load.dir/depend [ 58%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/sra-writer.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load/CMakeFiles/cg-load.dir/DependInfo.cmake "--color=" make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/CMakeFiles/general-loader.dir/DependInfo.cmake "--color=" [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o -MF CMakeFiles/fastq-load.dir/loader.c.o.d -o CMakeFiles/fastq-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -MF CMakeFiles/srf-load.dir/loader.c.o.d -o CMakeFiles/srf-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/cg-load/CMakeFiles/cg-load.dir/build.make tools/loaders/cg-load/CMakeFiles/cg-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/general-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/general-loader.cpp.o -MF CMakeFiles/general-loader.dir/general-loader.cpp.o.d -o CMakeFiles/general-loader.dir/general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/general-loader.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump.dir/link.d "CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o" "CMakeFiles/vdb-dump.dir/vdb_info.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump.c.o" -o ../../../bin/vdb-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-dump vdb-dump.3.0.9 [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o -MF CMakeFiles/helicos-load.dir/run-xml.c.o.d -o CMakeFiles/helicos-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 59%] Linking C executable ../../../bin/illumina-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-load.dir/link.txt --verbose=1 [ 60%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o -MF CMakeFiles/helicos-load.dir/loader-file.c.o.d -o CMakeFiles/helicos-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3.0.9 vdb-dump.3 [ 60%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o -MF CMakeFiles/fastq-load.dir/writer-illumina.c.o.d -o CMakeFiles/fastq-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3 vdb-dump [ 60%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 vdb-dump-driver [ 60%] Linking C executable ../../../bin/latf-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/latf-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 60%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/run-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 60%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o -MF CMakeFiles/helicos-load.dir/loader-fmt.c.o.d -o CMakeFiles/helicos-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 60%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o [ 60%] Built target vdb-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o -MF CMakeFiles/general-loader.dir/protocol-parser.cpp.o.d -o CMakeFiles/general-loader.dir/protocol-parser.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/protocol-parser.cpp make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c: In function 'DB_Fini': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c:229:65: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 229 | if( (rc = KLoaderMeta_Write(node, p->argv0, __DATE__, "Complete Genomics", KAppVersion())) != 0 ) { | ^~~~~~~~ [ 60%] Linking C executable ../../../bin/fasterq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fasterq-dump.dir/link.txt --verbose=1 [ 61%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-file.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 62%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build [ 62%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o -MF CMakeFiles/general-loader.dir/main.cpp.o.d -o CMakeFiles/general-loader.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o -MF CMakeFiles/general-loader.dir/database-loader.cpp.o.d -o CMakeFiles/general-loader.dir/database-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 62%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c [ 62%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o [ 63%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o -MF CMakeFiles/sff-load.dir/writer-454.c.o.d -o CMakeFiles/sff-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -MF CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o.d -o CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp [ 63%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/sff-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/latf-load.dir/link.d "CMakeFiles/latf-load.dir/spot-assembler.c.o" "CMakeFiles/latf-load.dir/common-writer.c.o" "CMakeFiles/latf-load.dir/sequence-writer.c.o" "CMakeFiles/latf-load.dir/common-reader.c.o" "CMakeFiles/latf-load.dir/fastq-reader.c.o" "CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o" "CMakeFiles/latf-load.dir/zz_fastq-lex.c.o" "CMakeFiles/latf-load.dir/id2name.c.o" "CMakeFiles/latf-load.dir/fastq-loader.c.o" "CMakeFiles/latf-load.dir/loader-imp.c.o" -o ../../../bin/latf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f latf-load.3.0.9 [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -MF CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o.d -o CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv latf-load latf-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3.0.9 latf-load.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-load.dir/link.d "CMakeFiles/illumina-load.dir/pstring.c.o" "CMakeFiles/illumina-load.dir/common-xml.c.o" "CMakeFiles/illumina-load.dir/experiment-xml.c.o" "CMakeFiles/illumina-load.dir/run-xml.c.o" "CMakeFiles/illumina-load.dir/loader-file.c.o" "CMakeFiles/illumina-load.dir/loader-fmt.c.o" "CMakeFiles/illumina-load.dir/sra-writer.c.o" "CMakeFiles/illumina-load.dir/loader.c.o" "CMakeFiles/illumina-load.dir/writer-illumina.c.o" "CMakeFiles/illumina-load.dir/illumina-fmt.c.o" -o ../../../bin/illumina-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3 latf-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-load illumina-load.3.0.9 [ 65%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3.0.9 illumina-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5dir.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3 illumina-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target latf-load [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o [ 65%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -MF CMakeFiles/sff-load.dir/sff-fmt.c.o.d -o CMakeFiles/sff-load.dir/sff-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sff-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5file.c [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o [ 65%] Built target illumina-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o -MF CMakeFiles/helicos-load.dir/sra-writer.c.o.d -o CMakeFiles/helicos-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fasterq-dump.dir/link.d "CMakeFiles/fasterq-dump.dir/helper.c.o" "CMakeFiles/fasterq-dump.dir/arg_helper.c.o" "CMakeFiles/fasterq-dump.dir/dflt_defline.c.o" "CMakeFiles/fasterq-dump.dir/tool_ctx.c.o" "CMakeFiles/fasterq-dump.dir/inspector.c.o" "CMakeFiles/fasterq-dump.dir/sbuffer.c.o" "CMakeFiles/fasterq-dump.dir/err_msg.c.o" "CMakeFiles/fasterq-dump.dir/file_tools.c.o" "CMakeFiles/fasterq-dump.dir/var_fmt.c.o" "CMakeFiles/fasterq-dump.dir/flex_printer.c.o" "CMakeFiles/fasterq-dump.dir/temp_dir.c.o" "CMakeFiles/fasterq-dump.dir/progress_thread.c.o" "CMakeFiles/fasterq-dump.dir/cleanup_task.c.o" "CMakeFiles/fasterq-dump.dir/index.c.o" "CMakeFiles/fasterq-dump.dir/lookup_writer.c.o" "CMakeFiles/fasterq-dump.dir/lookup_reader.c.o" "CMakeFiles/fasterq-dump.dir/locked_file_list.c.o" "CMakeFiles/fasterq-dump.dir/locked_value.c.o" "CMakeFiles/fasterq-dump.dir/file_printer.c.o" "CMakeFiles/fasterq-dump.dir/merge_sorter.c.o" "CMakeFiles/fasterq-dump.dir/sorter.c.o" "CMakeFiles/fasterq-dump.dir/cmn_iter.c.o" "CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o" "CMakeFiles/fasterq-dump.dir/special_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o" "CMakeFiles/fasterq-dump.dir/align_iter.c.o" "CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o" "CMakeFiles/fasterq-dump.dir/db_join.c.o" "CMakeFiles/fasterq-dump.dir/tbl_join.c.o" "CMakeFiles/fasterq-dump.dir/temp_registry.c.o" "CMakeFiles/fasterq-dump.dir/copy_machine.c.o" "CMakeFiles/fasterq-dump.dir/multi_writer.c.o" "CMakeFiles/fasterq-dump.dir/concatenator.c.o" "CMakeFiles/fasterq-dump.dir/ref_inventory.c.o" "CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o" -o ../../../bin/fasterq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fasterq-dump.3.0.9 [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -MF CMakeFiles/srf-load.dir/srf.c.o.d -o CMakeFiles/srf-load.dir/srf.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fasterq-dump fasterq-dump.3.0.9 [ 65%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c [ 65%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3.0.9 fasterq-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -MF CMakeFiles/fastq-load.dir/writer-454.c.o.d -o CMakeFiles/fastq-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:32: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/../database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3 fasterq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fasterq-dump-driver [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c [ 66%] Built target fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:619:86: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 619 | REQUIRE_EQ ( string ( __DATE__), GetDbMetadataAttr ( "SOFTWARE/loader", "date" ) ); | ^ [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o -MF CMakeFiles/fastq-load.dir/fastq-fmt.c.o.d -o CMakeFiles/fastq-load.dir/fastq-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/fastq-fmt.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-intervals.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-dnbs.c [ 66%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o -MF CMakeFiles/test-general-loader.dir/testsource.cpp.o.d -o CMakeFiles/test-general-loader.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -MF CMakeFiles/cg-load.dir/factory-mappings.c.o.d -o CMakeFiles/cg-load.dir/factory-mappings.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -MF CMakeFiles/cg-load.dir/factory-reads.c.o.d -o CMakeFiles/cg-load.dir/factory-reads.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-reads.c [ 66%] Linking C executable ../../../bin/sra-stat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-stat.dir/link.txt --verbose=1 [ 66%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o -MF CMakeFiles/sra-sort.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o [ 66%] Linking C executable ../../../bin/sam-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o -MF CMakeFiles/srf-load.dir/srf-fmt.c.o.d -o CMakeFiles/srf-load.dir/srf-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-dump.dir/link.txt --verbose=1 [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -MF CMakeFiles/cg-load.dir/factory-tag-lfr.c.o.d -o CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-tag-lfr.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -MF CMakeFiles/srf-load.dir/writer-illumina.c.o.d -o CMakeFiles/srf-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -MF CMakeFiles/cg-load.dir/f1_3.c.o.d -o CMakeFiles/cg-load.dir/f1_3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_3.c [ 66%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -MF CMakeFiles/pacbio-load.dir/pl-context.c.o.d -o CMakeFiles/pacbio-load.dir/pl-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-context.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -MF CMakeFiles/helicos-load.dir/writer-helicos.c.o.d -o CMakeFiles/helicos-load.dir/writer-helicos.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-helicos.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o -MF CMakeFiles/helicos-load.dir/loader.c.o.d -o CMakeFiles/helicos-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o -MF CMakeFiles/srf-load.dir/ztr-illumina.c.o.d -o CMakeFiles/srf-load.dir/ztr-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-illumina.c [ 66%] Linking C executable ../../../bin/sff-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-load.dir/link.txt --verbose=1 [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pacbio-fmt.c [ 66%] Linking C executable ../../../bin/abi-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-load.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-stat.dir/link.d "CMakeFiles/sra-stat.dir/assembly-statistics.c.o" "CMakeFiles/sra-stat.dir/sra.c.o" "CMakeFiles/sra-stat.dir/sra-stat.c.o" -o ../../../bin/sra-stat ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-stat.3.0.9 make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-stat sra-stat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3.0.9 sra-stat.3 make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3 sra-stat make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 66%] Linking CXX executable ../../../bin/qa-stats cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qa-stats.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 66%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -MF CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o.d -o CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-gw-dumper.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-dump.dir/link.d "CMakeFiles/sam-dump.dir/inputfiles.c.o" "CMakeFiles/sam-dump.dir/perf_log.c.o" "CMakeFiles/sam-dump.dir/rna_splice_log.c.o" "CMakeFiles/sam-dump.dir/sam-dump-opts.c.o" "CMakeFiles/sam-dump.dir/out_redir.c.o" "CMakeFiles/sam-dump.dir/sam-hdr.c.o" "CMakeFiles/sam-dump.dir/sam-hdr1.c.o" "CMakeFiles/sam-dump.dir/matecache.c.o" "CMakeFiles/sam-dump.dir/read_fkt.c.o" "CMakeFiles/sam-dump.dir/sam-aligned.c.o" "CMakeFiles/sam-dump.dir/sam-unaligned.c.o" "CMakeFiles/sam-dump.dir/md_flag.c.o" "CMakeFiles/sam-dump.dir/cg_tools.c.o" "CMakeFiles/sam-dump.dir/sam-dump.c.o" "CMakeFiles/sam-dump.dir/sam-dump3.c.o" "CMakeFiles/sam-dump.dir/dyn_string.c.o" -o ../../../bin/sam-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sam-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sam-dump sam-dump.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3.0.9 sam-dump.3 [ 66%] Built target sra-stat [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings15_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:248:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 248 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:225:14: note: 'tmp' declared here 225 | char tmp[2]; | ^~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o -MF CMakeFiles/helicos-load.dir/helicos-fmt.c.o.d -o CMakeFiles/helicos-load.dir/helicos-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/helicos-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3 sam-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sam-dump-driver [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o -MF CMakeFiles/srf-load.dir/srf-illumina.c.o.d -o CMakeFiles/srf-load.dir/srf-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-illumina.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/db-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c [ 67%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o -MF CMakeFiles/makeinputs.dir/makeinputs.cpp.o.d -o CMakeFiles/makeinputs.dir/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/makeinputs.cpp [ 67%] Built target sam-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 67%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -MF CMakeFiles/cg-load.dir/f1_5.c.o.d -o CMakeFiles/cg-load.dir/f1_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_5.c [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o -MF CMakeFiles/srf-load.dir/writer-absolid.c.o.d -o CMakeFiles/srf-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c [ 67%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-load.dir/link.d "CMakeFiles/sff-load.dir/pstring.c.o" "CMakeFiles/sff-load.dir/common-xml.c.o" "CMakeFiles/sff-load.dir/experiment-xml.c.o" "CMakeFiles/sff-load.dir/run-xml.c.o" "CMakeFiles/sff-load.dir/loader-file.c.o" "CMakeFiles/sff-load.dir/loader-fmt.c.o" "CMakeFiles/sff-load.dir/sra-writer.c.o" "CMakeFiles/sff-load.dir/loader.c.o" "CMakeFiles/sff-load.dir/writer-454.c.o" "CMakeFiles/sff-load.dir/writer-ion-torrent.c.o" "CMakeFiles/sff-load.dir/sff-fmt.c.o" -o ../../../bin/sff-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -MF CMakeFiles/makeinputs.dir/testsource.cpp.o.d -o CMakeFiles/makeinputs.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp [ 67%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -MF CMakeFiles/pacbio-load.dir/pl-tools.c.o.d -o CMakeFiles/pacbio-load.dir/pl-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-tools.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-load sff-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3.0.9 sff-load.3 [ 67%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3 sff-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -MF CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o.d -o CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-load.dir/link.d "CMakeFiles/abi-load.dir/pstring.c.o" "CMakeFiles/abi-load.dir/common-xml.c.o" "CMakeFiles/abi-load.dir/experiment-xml.c.o" "CMakeFiles/abi-load.dir/run-xml.c.o" "CMakeFiles/abi-load.dir/loader-file.c.o" "CMakeFiles/abi-load.dir/loader-fmt.c.o" "CMakeFiles/abi-load.dir/sra-writer.c.o" "CMakeFiles/abi-load.dir/loader.c.o" "CMakeFiles/abi-load.dir/writer-absolid.c.o" "CMakeFiles/abi-load.dir/absolid-fmt.c.o" -o ../../../bin/abi-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-load abi-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3.0.9 abi-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3 abi-load [ 67%] Built target sff-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/depend [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/DependInfo.cmake "--color=" [ 67%] Built target abi-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings22_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:311:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 311 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:287:14: note: 'tmp' declared here 287 | char tmp[2]; | ^~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o -MF CMakeFiles/srf-load.dir/ztr-absolid.c.o.d -o CMakeFiles/srf-load.dir/ztr-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-absolid.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/qa-stats.dir/link.d "CMakeFiles/qa-stats.dir/main.cpp.o" "CMakeFiles/qa-stats.dir/input.cpp.o" "CMakeFiles/qa-stats.dir/output.cpp.o" -o ../../../bin/qa-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -MF CMakeFiles/srf-load.dir/ztr-huffman.c.o.d -o CMakeFiles/srf-load.dir/ztr-huffman.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-huffman.c [ 68%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o -MF CMakeFiles/pacbio-load.dir/pl-zmw.c.o.d -o CMakeFiles/pacbio-load.dir/pl-zmw.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-zmw.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build [ 68%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -MF CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o.d -o CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -MF CMakeFiles/sra-sort.dir/run.c.o.d -o CMakeFiles/sra-sort.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -MF CMakeFiles/srf-load.dir/srf-absolid.c.o.d -o CMakeFiles/srf-load.dir/srf-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-absolid.c [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o cd 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-Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o -MF CMakeFiles/vdb-lock.dir/vdb-lock.c.o.d -o CMakeFiles/vdb-lock.dir/vdb-lock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock/vdb-lock.c [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c [ 68%] Linking C executable ../../../bin/fastq-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-load.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -MF CMakeFiles/sra-sort.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c [ 68%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -MF CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o.d -o CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-basecalls_cmn.c [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 69%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o -MF CMakeFiles/sra-sort.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o -MF CMakeFiles/pacbio-load.dir/pl-sequence.c.o.d -o CMakeFiles/pacbio-load.dir/pl-sequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-sequence.c [ 69%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings25_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:382:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 382 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:358:14: note: 'tmp' declared here 358 | char tmp[2]; | ^~~ [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o [ 69%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o -MF CMakeFiles/pacbio-load.dir/pl-consensus.c.o.d -o CMakeFiles/pacbio-load.dir/pl-consensus.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-consensus.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c [ 69%] Linking C executable ../../../bin/vdb-lock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-lock.dir/link.txt --verbose=1 [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o -MF CMakeFiles/pacbio-load.dir/pl-metrics.c.o.d -o CMakeFiles/pacbio-load.dir/pl-metrics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-metrics.c [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o [ 70%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o -MF CMakeFiles/sra-sort-cg.dir/run.c.o.d -o CMakeFiles/sra-sort-cg.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c [ 70%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -MF CMakeFiles/sra-sort-cg.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o -MF CMakeFiles/pacbio-load.dir/pl-passes.c.o.d -o CMakeFiles/pacbio-load.dir/pl-passes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-passes.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -MF CMakeFiles/pacbio-load.dir/pl-regions.c.o.d -o CMakeFiles/pacbio-load.dir/pl-regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-regions.c [ 70%] Linking CXX executable ../../../test-bin/Test_Drivertool_SDLResponse cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_SDLResponse.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-load.dir/link.d "CMakeFiles/fastq-load.dir/pstring.c.o" "CMakeFiles/fastq-load.dir/common-xml.c.o" "CMakeFiles/fastq-load.dir/experiment-xml.c.o" "CMakeFiles/fastq-load.dir/run-xml.c.o" "CMakeFiles/fastq-load.dir/loader-file.c.o" "CMakeFiles/fastq-load.dir/loader-fmt.c.o" "CMakeFiles/fastq-load.dir/sra-writer.c.o" "CMakeFiles/fastq-load.dir/loader.c.o" "CMakeFiles/fastq-load.dir/writer-illumina.c.o" "CMakeFiles/fastq-load.dir/writer-454.c.o" "CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o" "CMakeFiles/fastq-load.dir/fastq-fmt.c.o" -o ../../../bin/fastq-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-lock.dir/link.d "CMakeFiles/vdb-lock.dir/vdb-lock.c.o" -o ../../../bin/vdb-lock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 71%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c [ 71%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-lock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o -MF CMakeFiles/pacbio-load.dir/pl-progress.c.o.d -o CMakeFiles/pacbio-load.dir/pl-progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-progress.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-load fastq-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-lock vdb-lock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3.0.9 fastq-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3 fastq-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 71%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3.0.9 vdb-lock.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o -MF CMakeFiles/pacbio-load.dir/pacbio-load.c.o.d -o CMakeFiles/pacbio-load.dir/pacbio-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3 vdb-lock [ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -MF CMakeFiles/cg-load.dir/f1_7.c.o.d -o CMakeFiles/cg-load.dir/f1_7.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_7.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/DependInfo.cmake "--color=" [ 71%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 71%] Built target fastq-load make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache/CMakeFiles/align-cache.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 71%] Built target vdb-lock make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract/CMakeFiles/ccextract.dir/DependInfo.cmake "--color=" [ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -MF CMakeFiles/cg-load.dir/f2_2.c.o.d -o CMakeFiles/cg-load.dir/f2_2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_2.c [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -MF CMakeFiles/cg-load.dir/f2_0.c.o.d -o CMakeFiles/cg-load.dir/f2_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_0.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/build [ 72%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o [ 72%] Building C object tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-unlock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -MF CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o.d -o CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock/vdb-unlock.c [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -MF CMakeFiles/cg-load.dir/f2_4.c.o.d -o CMakeFiles/cg-load.dir/f2_4.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_4.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c: In function 'pacbio_meta_entry': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c:219:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 219 | rc = KLoaderMeta_Write( node, toolname, __DATE__, "PacBio HDF5", KAppVersion() ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -MF CMakeFiles/align-cache.dir/align-cache.cpp.o.d -o CMakeFiles/align-cache.dir/align-cache.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/align-cache.cpp [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o -MF CMakeFiles/cg-load.dir/f2_5.c.o.d -o CMakeFiles/cg-load.dir/f2_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_5.c make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/depend [ 72%] Linking C executable ../../../bin/sra-sort make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat/CMakeFiles/copycat.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort.dir/link.txt --verbose=1 make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/DependInfo.cmake "--color=" [ 72%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o -MF CMakeFiles/align-cache.dir/helper.cpp.o.d -o CMakeFiles/align-cache.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/helper.cpp [ 72%] Building C object tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ccextract\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -MF CMakeFiles/ccextract.dir/ccextract.c.o.d -o CMakeFiles/ccextract.dir/ccextract.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract/ccextract.c [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o -MF CMakeFiles/cg-load.dir/file.c.o.d -o CMakeFiles/cg-load.dir/file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -MF CMakeFiles/cg-load.dir/file-version-factory.c.o.d -o 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter/make-read-filter.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_SDLResponse.dir/link.d "CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o" -o ../../../test-bin/Test_Drivertool_SDLResponse [ 72%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd 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../../../bin/vdb-unlock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-unlock.dir/link.txt --verbose=1 [ 73%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o -MF CMakeFiles/copycat.dir/cccat.c.o.d -o CMakeFiles/copycat.dir/cccat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cccat.c [ 73%] Built target Test_Drivertool_SDLResponse make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o -MF CMakeFiles/copycat.dir/cctar.c.o.d -o CMakeFiles/copycat.dir/cctar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctar.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o -MF CMakeFiles/cg-load.dir/formats.c.o.d -o CMakeFiles/cg-load.dir/formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/formats.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb 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-D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o -MF CMakeFiles/copycat.dir/cctree-dump.c.o.d -o CMakeFiles/copycat.dir/cctree-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree-dump.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy/CMakeFiles/meta-copy.dir/DependInfo.cmake "--color=" [ 73%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o [ 73%] Linking C executable ../../../bin/helicos-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/helicos-load.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -MF CMakeFiles/cg-load.dir/writer-algn.c.o.d -o CMakeFiles/cg-load.dir/writer-algn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-algn.c [ 74%] Building C object tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-cmp\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o -MF CMakeFiles/meta-cmp.dir/meta-cmp.c.o.d -o CMakeFiles/meta-cmp.dir/meta-cmp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp/meta-cmp.c [ 74%] Linking CXX executable ../../../../test-bin/test-gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-gw-dumper.dir/link.txt --verbose=1 [ 74%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -MF CMakeFiles/copycat.dir/ccsra.c.o.d -o CMakeFiles/copycat.dir/ccsra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsra.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort.dir/link.d "CMakeFiles/sra-sort.dir/caps.c.o" "CMakeFiles/sra-sort.dir/mem.c.o" "CMakeFiles/sra-sort.dir/membank.c.o" "CMakeFiles/sra-sort.dir/paged-membank.c.o" "CMakeFiles/sra-sort.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort.dir/except.c.o" "CMakeFiles/sra-sort.dir/idx-mapping.c.o" "CMakeFiles/sra-sort.dir/map-file.c.o" "CMakeFiles/sra-sort.dir/col-pair.c.o" "CMakeFiles/sra-sort.dir/row-set.c.o" "CMakeFiles/sra-sort.dir/simple-row-set.c.o" "CMakeFiles/sra-sort.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort.dir/meta-pair.c.o" "CMakeFiles/sra-sort.dir/dir-pair.c.o" "CMakeFiles/sra-sort.dir/tbl-pair.c.o" "CMakeFiles/sra-sort.dir/db-pair.c.o" "CMakeFiles/sra-sort.dir/glob-poslen.c.o" "CMakeFiles/sra-sort.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort.dir/buff-writer.c.o" "CMakeFiles/sra-sort.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort.dir/run.c.o" "CMakeFiles/sra-sort.dir/sra-sort.c.o" "CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort.dir/csra-tbl.c.o" "CMakeFiles/sra-sort.dir/csra-pair.c.o" -o ../../../bin/sra-sort /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort sra-sort.3.0.9 [ 74%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-dnbs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3.0.9 sra-sort.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3 sra-sort /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-unlock.dir/link.d "CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o" -o ../../../bin/vdb-unlock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-unlock.3.0.9 [ 74%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -MF CMakeFiles/copycat.dir/ccsubchunk.c.o.d -o CMakeFiles/copycat.dir/ccsubchunk.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsubchunk.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-unlock vdb-unlock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3.0.9 vdb-unlock.3 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp: In function 'void run(const char*, bool, const int32_t*, const int32_t*, const int8_t*, int)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:76:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 76 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:45:20: note: 'gw' was declared here 45 | GeneralWriter *gw; | ^~ [ 74%] Building C object tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -MF CMakeFiles/meta-copy.dir/meta-copy.c.o.d -o CMakeFiles/meta-copy.dir/meta-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy/meta-copy.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3 vdb-unlock [ 74%] Linking C executable ../../../bin/srf-load [ 74%] Built target sra-sort cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/srf-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-intervals.c [ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o -MF CMakeFiles/cg-load.dir/writer-seq.c.o.d -o CMakeFiles/cg-load.dir/writer-seq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-seq.c [ 75%] Built target vdb-unlock [ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -MF CMakeFiles/copycat.dir/ccfile.c.o.d -o CMakeFiles/copycat.dir/ccfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfile.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c: In function 'CCFileFormatIsFastq': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:275:27: warning: 'seq_len' may be used uninitialized [-Wmaybe-uninitialized] 275 | if(quality_values_len != seq_len) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:193:12: note: 'seq_len' was declared here 193 | size_t seq_len,quality_values_len,seq_id_len; | ^~~~~~~ [ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o [ 75%] Linking C executable ../../../bin/sra-sort-cg cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -MF CMakeFiles/copycat.dir/kff/fileformat.c.o.d -o CMakeFiles/copycat.dir/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort-cg.dir/link.txt --verbose=1 [ 75%] Linking C executable ../../../bin/pacbio-loadxml cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-loadxml.dir/link.txt --verbose=1 make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair/CMakeFiles/meta-repair.dir/DependInfo.cmake "--color=" make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/depend In file included from /usr/include/c++/14/ios:42, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc/general-writer/general-writer.hpp:34, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:30: In static member function 'static std::size_t std::char_traits::length(const char_type*)', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const _CharT*, const _Alloc&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/14/bits/basic_string.h:653:49, inlined from 'void run(const char*, TestCaseType, const std::string*, int)' at /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:77:25: /usr/include/c++/14/bits/char_traits.h:391:32: warning: 'db_schema' may be used uninitialized [-Wmaybe-uninitialized] 391 | return __builtin_strlen(__s); | ~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp: In function 'void run(const char*, TestCaseType, const std::string*, int)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:57:21: note: 'db_schema' was declared here 57 | const char* db_schema; | ^~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:101:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 101 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:54:20: note: 'gw' was declared here 54 | GeneralWriter *gw; | ^~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-gw-dumper.dir/link.d "CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o" -o ../../../../test-bin/test-gw-dumper ../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o -MF CMakeFiles/copycat.dir/kff/ffext.c.o.d -o CMakeFiles/copycat.dir/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/DependInfo.cmake "--color=" [ 75%] Linking C executable ../../../bin/ccextract [ 75%] Building C object tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccextract.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/meta-repair\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -MF CMakeFiles/meta-repair.dir/meta-repair.c.o.d -o CMakeFiles/meta-repair.dir/meta-repair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair/meta-repair.c [ 75%] Linking C executable ../../../bin/meta-cmp [ 75%] Built target test-gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-cmp.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 76%] Building C object tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -MF CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o.d -o CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/test-read-write-cursor.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/helicos-load.dir/link.d "CMakeFiles/helicos-load.dir/pstring.c.o" "CMakeFiles/helicos-load.dir/common-xml.c.o" "CMakeFiles/helicos-load.dir/experiment-xml.c.o" "CMakeFiles/helicos-load.dir/run-xml.c.o" "CMakeFiles/helicos-load.dir/loader-file.c.o" "CMakeFiles/helicos-load.dir/loader-fmt.c.o" "CMakeFiles/helicos-load.dir/sra-writer.c.o" "CMakeFiles/helicos-load.dir/loader.c.o" "CMakeFiles/helicos-load.dir/writer-helicos.c.o" "CMakeFiles/helicos-load.dir/helicos-fmt.c.o" -o ../../../bin/helicos-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f helicos-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv helicos-load helicos-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3.0.9 helicos-load.3 [ 76%] Building C object tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -MF CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o.d -o CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3 helicos-load make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 76%] Linking CXX executable ../../../../../test-bin/bio-end-makeinputs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/DependInfo.cmake "--color=" [ 77%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/bio-end-makeinputs.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -MF CMakeFiles/copycat.dir/kff/ffkey.c.o.d -o CMakeFiles/copycat.dir/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c [ 77%] Linking C executable ../../../bin/md5cp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cmake -E cmake_link_script CMakeFiles/md5cp.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srf-load.dir/link.d "CMakeFiles/srf-load.dir/pstring.c.o" "CMakeFiles/srf-load.dir/common-xml.c.o" "CMakeFiles/srf-load.dir/experiment-xml.c.o" "CMakeFiles/srf-load.dir/run-xml.c.o" "CMakeFiles/srf-load.dir/loader-file.c.o" "CMakeFiles/srf-load.dir/loader-fmt.c.o" "CMakeFiles/srf-load.dir/sra-writer.c.o" "CMakeFiles/srf-load.dir/loader.c.o" "CMakeFiles/srf-load.dir/srf.c.o" "CMakeFiles/srf-load.dir/srf-fmt.c.o" "CMakeFiles/srf-load.dir/writer-illumina.c.o" "CMakeFiles/srf-load.dir/ztr-illumina.c.o" "CMakeFiles/srf-load.dir/srf-illumina.c.o" "CMakeFiles/srf-load.dir/writer-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-huffman.c.o" "CMakeFiles/srf-load.dir/srf-absolid.c.o" -o ../../../bin/srf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so [ 77%] Linking C executable ../../../bin/meta-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srf-load.3.0.9 make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-copy.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srf-load srf-load.3.0.9 [ 77%] Built target helicos-load make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3.0.9 srf-load.3 [ 77%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort-cg.dir/link.d "CMakeFiles/sra-sort-cg.dir/caps.c.o" "CMakeFiles/sra-sort-cg.dir/mem.c.o" "CMakeFiles/sra-sort-cg.dir/membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort-cg.dir/except.c.o" "CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o" "CMakeFiles/sra-sort-cg.dir/map-file.c.o" "CMakeFiles/sra-sort-cg.dir/col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/row-set.c.o" "CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/meta-pair.c.o" "CMakeFiles/sra-sort-cg.dir/dir-pair.c.o" "CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o" "CMakeFiles/sra-sort-cg.dir/db-pair.c.o" "CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o" "CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort-cg.dir/buff-writer.c.o" "CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort-cg.dir/run.c.o" "CMakeFiles/sra-sort-cg.dir/sra-sort.c.o" "CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o" "CMakeFiles/sra-sort-cg.dir/csra-pair.c.o" -o ../../../bin/sra-sort-cg /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -MF CMakeFiles/copycat.dir/kff/ffmagic.c.o.d -o CMakeFiles/copycat.dir/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact/CMakeFiles/check-redact.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3 srf-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort-cg.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort-cg sra-sort-cg.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3.0.9 sra-sort-cg.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-cmp.dir/link.d "CMakeFiles/meta-cmp.dir/meta-cmp.c.o" -o ../../../bin/meta-cmp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o -MF CMakeFiles/vdb-copy.dir/context.c.o.d -o CMakeFiles/vdb-copy.dir/context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/context.c make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3 sra-sort-cg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-cmp.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-cmp meta-cmp.3.0.9 [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -MF CMakeFiles/vdb-copy.dir/helper.c.o.d -o CMakeFiles/vdb-copy.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/helper.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target srf-load make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3.0.9 meta-cmp.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target sra-sort-cg [ 77%] Building C object tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/check-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o -MF CMakeFiles/check-redact.dir/check-redact.c.o.d -o CMakeFiles/check-redact.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact/check-redact.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3 meta-cmp make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download/CMakeFiles/test-download.dir/DependInfo.cmake "--color=" [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 77%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c:755:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 755 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o -MF CMakeFiles/vdb-diff.dir/coldefs.c.o.d -o CMakeFiles/vdb-diff.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/coldefs.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o -MF CMakeFiles/vdb-copy.dir/coldefs.c.o.d -o CMakeFiles/vdb-copy.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/coldefs.c [ 77%] Building C object tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -MF CMakeFiles/vdb-copy.dir/get_platform.c.o.d -o CMakeFiles/vdb-copy.dir/get_platform.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/get_platform.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -MF CMakeFiles/crc32sum.dir/crc32sum.c.o.d -o CMakeFiles/crc32sum.dir/crc32sum.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum/crc32sum.c [ 77%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -MF CMakeFiles/vdb-diff.dir/namelist_tools.c.o.d -o CMakeFiles/vdb-diff.dir/namelist_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/namelist_tools.c [ 77%] Built target meta-cmp make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/md5cp.dir/link.d CMakeFiles/md5cp.dir/md5cp.c.o -o ../../../bin/md5cp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f md5cp.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff-context.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv md5cp md5cp.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-copy.dir/link.d "CMakeFiles/meta-copy.dir/meta-copy.c.o" -o ../../../bin/meta-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-copy.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3.0.9 md5cp.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-copy meta-copy.3.0.9 [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3 md5cp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -MF CMakeFiles/vdb-diff.dir/cmn.c.o.d -o CMakeFiles/vdb-diff.dir/cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/cmn.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3.0.9 meta-copy.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3 meta-copy make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o [ 78%] Building C object tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -MF CMakeFiles/test-download.dir/test-download.c.o.d -o CMakeFiles/test-download.dir/test-download.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download/test-download.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o -MF CMakeFiles/kdb-index.dir/kdb-index.c.o.d -o CMakeFiles/kdb-index.dir/kdb-index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index/kdb-index.c [ 78%] Built target meta-copy [ 78%] Built target md5cp make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bio-end-makeinputs.dir/link.d "CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o" -o ../../../../../test-bin/bio-end-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -MF CMakeFiles/vdb-diff.dir/row_by_row.c.o.d -o CMakeFiles/vdb-diff.dir/row_by_row.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/row_by_row.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-loadxml.dir/link.d "CMakeFiles/pacbio-loadxml.dir/pstring.c.o" "CMakeFiles/pacbio-loadxml.dir/common-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/run-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-file.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o" "CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o" "CMakeFiles/pacbio-loadxml.dir/loader.c.o" "CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o" -o ../../../bin/pacbio-loadxml ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-loadxml.3.0.9 [ 78%] Linking C executable ../../../bin/pacbio-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-load.dir/link.txt --verbose=1 [ 78%] Built target bio-end-makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-loadxml pacbio-loadxml.3.0.9 make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/depend [ 78%] Linking C executable ../../../bin/test-read-write-cursor make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3.0.9 pacbio-loadxml.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-read-write-cursor.dir/link.txt --verbose=1 [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3 pacbio-loadxml cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -MF CMakeFiles/vdb-diff.dir/col_by_col.c.o.d -o CMakeFiles/vdb-diff.dir/col_by_col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/col_by_col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ccextract.dir/link.d CMakeFiles/ccextract.dir/ccextract.c.o -o ../../../bin/ccextract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libxml2.so make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ccextract.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ccextract ccextract.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3.0.9 ccextract.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3 ccextract make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o [ 78%] Building C object tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -MF CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o.d -o CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct/pacbio-correct.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build [ 78%] Built target ccextract make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/DependInfo.cmake "--color=" [ 78%] Linking CXX executable ../../../../../test-bin/idx-text-makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-makeinputs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -MF CMakeFiles/schema-replace.dir/schema-replace.c.o.d -o CMakeFiles/schema-replace.dir/schema-replace.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace/schema-replace.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o -MF CMakeFiles/sortreadtest.dir/sortreadtest.c.o.d -o CMakeFiles/sortreadtest.dir/sortreadtest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest/sortreadtest.c [ 78%] Building C object tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o -MF CMakeFiles/rowwritetest.dir/rowwritetest.c.o.d -o CMakeFiles/rowwritetest.dir/rowwritetest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest/rowwritetest.c [ 78%] Built target pacbio-loadxml make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util/CMakeFiles/samview-util.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-read-write-cursor.dir/link.d "CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o" -o ../../../bin/test-read-write-cursor /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-read-write-cursor.3.0.9 [ 78%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld/CMakeFiles/testld.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o -MF CMakeFiles/vdb-copy.dir/copy_meta.c.o.d -o CMakeFiles/vdb-copy.dir/copy_meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-read-write-cursor test-read-write-cursor.3.0.9 [ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb 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tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/DependInfo.cmake "--color=" [ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3 test-read-write-cursor [ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -MF CMakeFiles/vdb-copy.dir/type_matcher.c.o.d -o CMakeFiles/vdb-copy.dir/type_matcher.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/type_matcher.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection 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-DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -MF CMakeFiles/vdb-copy.dir/vdb-copy.c.o.d -o CMakeFiles/vdb-copy.dir/vdb-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 79%] Linking C executable ../../../bin/cg-load make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/cg-load.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory 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-I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -MF CMakeFiles/samview-util.dir/samview.c.o.d -o CMakeFiles/samview-util.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util/samview.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -MF CMakeFiles/testld.dir/testld.c.o.d -o CMakeFiles/testld.dir/testld.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld/testld.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb/CMakeFiles/test-vdb.dir/DependInfo.cmake "--color=" make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 81%] Building C object tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c:301:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 301 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o -MF CMakeFiles/txt2kdb.dir/txt2kdb.c.o.d -o CMakeFiles/txt2kdb.dir/txt2kdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb/txt2kdb.c [ 81%] Linking C executable ../../../bin/crc32sum make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/build cd 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o -MF CMakeFiles/test-vdb.dir/test-vdb.cpp.o.d -o CMakeFiles/test-vdb.dir/test-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb/test-vdb.cpp [ 81%] Linking C executable ../../../bin/copycat make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-correct.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-makeinputs.dir/link.d "CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o" -o ../../../../../test-bin/idx-text-makeinputs 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-I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o -MF CMakeFiles/sam-analyze.dir/main.cpp.o.d -o CMakeFiles/sam-analyze.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/main.cpp [ 81%] Linking C executable ../../../bin/make-read-filter make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/make-read-filter.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 81%] Linking C executable ../../../bin/sortreadtest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/sortreadtest.dir/link.txt --verbose=1 [ 81%] Building Java objects for test-ngs-java.jar [ 81%] Built target Build-align-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS [ 81%] Built target idx-text-makeinputs [ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp [ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 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executable ../../../bin/samview-util cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview-util.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_sources [ 81%] Building C object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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--verbose=1 make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/depend [ 81%] Linking C executable ../../../bin/schema-replace cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cmake -E cmake_link_script CMakeFiles/schema-replace.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/crc32sum.dir/link.d CMakeFiles/crc32sum.dir/crc32sum.c.o -o ../../../bin/crc32sum /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cg-load.dir/link.d "CMakeFiles/cg-load.dir/cg-load.c.o" "CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/factory-mappings.c.o" "CMakeFiles/cg-load.dir/factory-reads.c.o" "CMakeFiles/cg-load.dir/factory-tag-lfr.c.o" "CMakeFiles/cg-load.dir/f1_3.c.o" "CMakeFiles/cg-load.dir/f1_5.c.o" "CMakeFiles/cg-load.dir/f1_7.c.o" "CMakeFiles/cg-load.dir/f2_0.c.o" "CMakeFiles/cg-load.dir/f2_2.c.o" "CMakeFiles/cg-load.dir/f2_4.c.o" "CMakeFiles/cg-load.dir/f2_5.c.o" "CMakeFiles/cg-load.dir/file.c.o" "CMakeFiles/cg-load.dir/file-version-factory.c.o" "CMakeFiles/cg-load.dir/formats.c.o" "CMakeFiles/cg-load.dir/writer-algn.c.o" "CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/writer-seq.c.o" -o ../../../bin/cg-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f crc32sum.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cg-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cg-load cg-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv crc32sum crc32sum.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-redact.dir/link.d "CMakeFiles/check-redact.dir/check-redact.c.o" -o ../../../bin/check-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3.0.9 cg-load.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-load.dir/link.d "CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o" "CMakeFiles/pacbio-load.dir/pl-context.c.o" "CMakeFiles/pacbio-load.dir/pl-tools.c.o" "CMakeFiles/pacbio-load.dir/pl-zmw.c.o" "CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o" "CMakeFiles/pacbio-load.dir/pl-sequence.c.o" "CMakeFiles/pacbio-load.dir/pl-consensus.c.o" "CMakeFiles/pacbio-load.dir/pl-passes.c.o" "CMakeFiles/pacbio-load.dir/pl-metrics.c.o" "CMakeFiles/pacbio-load.dir/pl-regions.c.o" "CMakeFiles/pacbio-load.dir/pl-progress.c.o" "CMakeFiles/pacbio-load.dir/pacbio-load.c.o" -o ../../../bin/pacbio-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libpthread.a /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.a -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3.0.9 crc32sum.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3 cg-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-load pacbio-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3.0.9 pacbio-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-redact.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3 pacbio-load [ 81%] Linking C executable ../../../bin/read-filter-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3 crc32sum make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/read-filter-redact.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-redact check-redact.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/make-read-filter.dir/link.d "CMakeFiles/make-read-filter.dir/make-read-filter.c.o" -o ../../../bin/make-read-filter /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f make-read-filter.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3.0.9 check-redact.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-correct.dir/link.d "CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o" -o ../../../bin/pacbio-correct /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-correct.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdb-index.dir/link.d "CMakeFiles/kdb-index.dir/kdb-index.c.o" -o ../../../bin/kdb-index /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdb-index.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv make-read-filter make-read-filter.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-correct pacbio-correct.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-tool-args.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3 check-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdb-index kdb-index.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/copycat.dir/link.d CMakeFiles/copycat.dir/copycat.c.o CMakeFiles/copycat.dir/ccfileformat.c.o CMakeFiles/copycat.dir/cccat.c.o CMakeFiles/copycat.dir/cctree.c.o "CMakeFiles/copycat.dir/cctree-dump.c.o" CMakeFiles/copycat.dir/cctar.c.o CMakeFiles/copycat.dir/ccsra.c.o CMakeFiles/copycat.dir/ccsubchunk.c.o CMakeFiles/copycat.dir/ccfile.c.o CMakeFiles/copycat.dir/kff/fileformat.c.o CMakeFiles/copycat.dir/kff/ffext.c.o CMakeFiles/copycat.dir/kff/ffkey.c.o CMakeFiles/copycat.dir/kff/ffmagic.c.o -o ../../../bin/copycat /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libmagic.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3.0.9 kdb-index.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f copycat.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sortreadtest.dir/link.d CMakeFiles/sortreadtest.dir/sortreadtest.c.o -o ../../../bin/sortreadtest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 81%] Linking C executable ../../../bin/testld make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sortreadtest.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv copycat copycat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cmake -E cmake_link_script CMakeFiles/testld.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3 kdb-index make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sortreadtest sortreadtest.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3.0.9 copycat.3 [ 81%] Built target cg-load [ 81%] Built target crc32sum cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3.0.9 sortreadtest.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3 copycat make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3 sortreadtest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3.0.9 make-read-filter.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3.0.9 pacbio-correct.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/DependInfo.cmake "--color=" make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3 make-read-filter [ 81%] Built target pacbio-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3 pacbio-correct make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath/CMakeFiles/Build-srapath.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build [ 81%] Built target check-redact [ 81%] Linking C executable ../../../bin/test-download /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview-util.dir/link.d "CMakeFiles/samview-util.dir/samview.c.o" -o ../../../bin/samview-util /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 81%] Built target copycat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-download.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview-util.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/depend [ 81%] Built target kdb-index make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview-util samview-util.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/DependInfo.cmake "--color=" [ 82%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/build [ 82%] Built target sortreadtest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/srapath/CMakeFiles/Build-srapath.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3.0.9 samview-util.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/schema-replace.dir/link.d "CMakeFiles/schema-replace.dir/schema-replace.c.o" -o ../../../bin/schema-replace /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 82%] Built target Build-kdbmeta make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o [ 82%] Built target pacbio-correct cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f schema-replace.3.0.9 make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3 samview-util cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv schema-replace schema-replace.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build [ 82%] Built target make-read-filter [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3.0.9 schema-replace.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp [ 83%] Built target Build-srapath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3 schema-replace [ 83%] Building CXX object test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/depend [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -MF CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o.d -o CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch/test-quality.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-diff.dir/link.d "CMakeFiles/vdb-diff.dir/namelist_tools.c.o" "CMakeFiles/vdb-diff.dir/coldefs.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o" "CMakeFiles/vdb-diff.dir/cmn.c.o" "CMakeFiles/vdb-diff.dir/row_by_row.c.o" "CMakeFiles/vdb-diff.dir/col_by_col.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff.c.o" -o ../../../bin/vdb-diff /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/json-parse.cpp [ 83%] Built target Build-sra-stat make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-diff.3.0.9 make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-diff vdb-diff.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 83%] Built target Build-sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3.0.9 vdb-diff.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3 vdb-diff make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/DependInfo.cmake "--color=" make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 83%] Linking CXX executable ../../../bin/align-cache cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-cache.dir/link.txt --verbose=1 [ 83%] Built target samview-util make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/DependInfo.cmake "--color=" [ 83%] Built target schema-replace make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/read-filter-redact.dir/link.d "CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o" -o ../../../bin/read-filter-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f read-filter-redact.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv read-filter-redact read-filter-redact.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testld.dir/link.d CMakeFiles/testld.dir/testld.c.o -o ../../../bin/testld /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build [ 83%] Built target vdb-diff cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3.0.9 read-filter-redact.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build [ 84%] Linking C executable ../../../bin/rowwritetest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3 read-filter-redact make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cmake -E cmake_link_script CMakeFiles/rowwritetest.dir/link.txt --verbose=1 make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f testld.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 84%] Linking C executable ../../../bin/meta-repair [ 84%] Building CXX object test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-repair.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -MF CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o.d -o CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat/testAssemblyStatistics.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv testld testld.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build [ 84%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o [ 84%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3.0.9 testld.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp [ 84%] Linking C executable ../../../bin/txt2kdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/txt2kdb.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3 testld [ 84%] Building CXX object test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o [ 84%] Built target read-filter-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -MF CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o.d -o CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config-model.cpp make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-download.dir/link.d "CMakeFiles/test-download.dir/test-download.c.o" -o ../../../bin/test-download /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-download.3.0.9 [ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-spec.cpp [ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -MF CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o.d -o CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/makedb.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-download test-download.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3.0.9 test-download.3 [ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-alias.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3 test-download make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 84%] Built target testld make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 84%] Building CXX object test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -MF CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o.d -o CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate/test-vdb-validate.cpp [ 84%] Built target test-download make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-repair.dir/link.d "CMakeFiles/meta-repair.dir/meta-repair.c.o" -o ../../../bin/meta-repair /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-repair.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-repair meta-repair.3.0.9 [ 85%] Building CXX object test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -MF CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o.d -o CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/test-sra-info.cpp make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rowwritetest.dir/link.d CMakeFiles/rowwritetest.dir/rowwritetest.c.o -o ../../../bin/rowwritetest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3.0.9 meta-repair.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3 meta-repair cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rowwritetest.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rowwritetest rowwritetest.3.0.9 [ 85%] Built target Build-latf-load make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3.0.9 rowwritetest.3 make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/txt2kdb.dir/link.d CMakeFiles/txt2kdb.dir/txt2kdb.c.o -o ../../../bin/txt2kdb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/DependInfo.cmake "--color=" make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f txt2kdb.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv txt2kdb txt2kdb.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3 rowwritetest [ 86%] Linking CXX executable ../../../test-bin/SlowTest_Prefetch cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Prefetch.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3.0.9 txt2kdb.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3 txt2kdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target meta-repair make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build [ 86%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o [ 86%] Building CXX object test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -MF CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o.d -o CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-id2name.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/DependInfo.cmake "--color=" [ 86%] Built target rowwritetest /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-cache.dir/link.d "CMakeFiles/align-cache.dir/align-cache.cpp.o" "CMakeFiles/align-cache.dir/helper.cpp.o" -o ../../../bin/align-cache /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-cache.3.0.9 [ 87%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq-parse.cpp [ 87%] Built target txt2kdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-cache align-cache.3.0.9 make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3.0.9 align-cache.3 [ 87%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3 align-cache make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o [ 87%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o [ 87%] Linking CXX executable ../../../../test-bin/makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/makeinputs.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-fastq-loader.cpp [ 87%] Built target align-cache make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Prefetch.dir/link.d "CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o" -o ../../../test-bin/SlowTest_Prefetch /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Linking C executable ../../../bin/vdb-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-copy.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Built target SlowTest_Prefetch make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/depend [ 87%] Building C object test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -MF CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o.d -o CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/qfiletest.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -MF CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o.d -o CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/test-loaderfile.cpp [ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c [ 88%] Linking CXX executable ../../../bin/sra-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-info.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/makeinputs.dir/link.d CMakeFiles/makeinputs.dir/makeinputs.cpp.o CMakeFiles/makeinputs.dir/testsource.cpp.o -o ../../../../test-bin/makeinputs ../../../../ilib/libgeneral-writer.a -lncbi-vdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-copy.dir/link.d "CMakeFiles/vdb-copy.dir/context.c.o" "CMakeFiles/vdb-copy.dir/helper.c.o" "CMakeFiles/vdb-copy.dir/coldefs.c.o" "CMakeFiles/vdb-copy.dir/get_platform.c.o" "CMakeFiles/vdb-copy.dir/copy_meta.c.o" "CMakeFiles/vdb-copy.dir/type_matcher.c.o" "CMakeFiles/vdb-copy.dir/redactval.c.o" "CMakeFiles/vdb-copy.dir/config_values.c.o" "CMakeFiles/vdb-copy.dir/vdb-copy.c.o" -o ../../../bin/vdb-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-copy vdb-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3.0.9 vdb-copy.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3 vdb-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/vdb-copy.kfg [ 88%] Linking CXX executable ../../../bin/general-loader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-loader.dir/link.txt --verbose=1 [ 88%] Built target makeinputs make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADER.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp:38: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 88%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o [ 88%] Linking C executable ../../../test-bin/Test_KAPP_qfile cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -MF CMakeFiles/Test_LOADER.dir/loadertest.cpp.o.d -o CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KAPP_qfile.dir/link.txt --verbose=1 In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 88%] Built target vdb-copy make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/Test_Align_samextract.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KAPP_qfile.dir/link.d CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -o ../../../test-bin/Test_KAPP_qfile ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:307:117: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 307 | REQUIRE_RC ( KLoaderMeta_Write ( node, LoaderName.c_str(), __DATE__, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:321:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 321 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:350:143: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 350 | REQUIRE_RC ( KLoaderMeta_WriteWithVersion ( node, LoaderName.c_str(), __DATE__, LoaderVersion, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:364:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 364 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ [ 88%] Building CXX object test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -MF CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o.d -o CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/test-samextract.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/general-loader.dir/link.d "CMakeFiles/general-loader.dir/general-loader.cpp.o" "CMakeFiles/general-loader.dir/protocol-parser.cpp.o" "CMakeFiles/general-loader.dir/database-loader.cpp.o" "CMakeFiles/general-loader.dir/main.cpp.o" -o ../../../bin/general-loader ../../../ilib/libgeneral-writer.a ../../../ilib/libloader.a -lkapp ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 88%] Built target Test_KAPP_qfile cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f general-loader.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv general-loader general-loader.3.0.9 make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3.0.9 general-loader.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3 general-loader make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Linking CXX executable ../../../bin/sratools cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/sratools.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-info.dir/link.d "CMakeFiles/sra-info.dir/main.cpp.o" "CMakeFiles/sra-info.dir/sra-info.cpp.o" "CMakeFiles/sra-info.dir/formatter.cpp.o" -o ../../../bin/sra-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-info.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache/CMakeFiles/Build-align-cache.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-info sra-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3.0.9 sra-info.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3 sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build [ 88%] Built target general-loader make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Build-copycat.dir/DependInfo.cmake "--color=" [ 88%] Built target Build-align-cache [ 88%] Linking CXX executable ../../../test-bin/vdb-dump-makedb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump-makedb.dir/link.txt --verbose=1 [ 88%] Built target sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/depend make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Test_KFF.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/DependInfo.cmake "--color=" make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o make[3]: Nothing to be done for 'test/internal/copycat/CMakeFiles/Build-copycat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target Build-copycat make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o [ 88%] Building CXX object test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o -MF CMakeFiles/Test_KFF.dir/kfftest.cpp.o.d -o CMakeFiles/Test_KFF.dir/kfftest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/kfftest.cpp [ 88%] Built target Build-make-read-filter make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:113: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:214:7: warning: 'sha1_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 214 | class sha1_filter : public sha_filter | ^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:218:7: warning: 'sha224_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 218 | class sha224_filter : public sha_filter | ^~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:222:7: warning: 'sha256_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 222 | class sha256_filter : public sha_filter | ^~~~~~~~~~~~~ [ 88%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target Build-read-filter-redact make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/DependInfo.cmake "--color=" [ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump-makedb.dir/link.d "CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o" -o ../../../test-bin/vdb-dump-makedb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target vdb-dump-makedb make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/depend [ 89%] Built target Build-vdb-copy [ 89%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sratools.dir/link.d CMakeFiles/sratools.dir/sratools.cpp.o CMakeFiles/sratools.dir/config.cpp.o "CMakeFiles/sratools.dir/command-line.cpp.o" "CMakeFiles/sratools.dir/run-source.cpp.o" CMakeFiles/sratools.dir/proc.cpp.o CMakeFiles/sratools.dir/uuid.cpp.o CMakeFiles/sratools.dir/accession.cpp.o CMakeFiles/sratools.dir/service.cpp.o "CMakeFiles/sratools.dir/json-parse.cpp.o" "CMakeFiles/sratools.dir/SDL-response.cpp.o" "CMakeFiles/sratools.dir/tool-args.cpp.o" "CMakeFiles/sratools.dir/build-version.cpp.o" "CMakeFiles/sratools.dir/file-path.posix.cpp.o" CMakeFiles/sratools.dir/proc.posix.cpp.o -o ../../../bin/sratools /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sratools.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 89%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-alias cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sratools sratools.3.0.9 [ 89%] Building CXX object ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-alias.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-c++\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -MF CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o.d -o CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++/NCBI-NGS.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sratools.3 [ 89%] Built target Build-vdb-diff cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3 sratools make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/DependInfo.cmake "--color=" [ 89%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c [ 89%] Built target sratools make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-doc.jar\ . make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-src.jar\ \ ngs/ErrorMsg.java\ ngs/Statistics.java\ ngs/Fragment.java\ ngs/FragmentIterator.java\ ngs/Read.java\ ngs/ReadIterator.java\ ngs/ReadGroup.java\ ngs/ReadGroupIterator.java\ ngs/Alignment.java\ ngs/AlignmentIterator.java\ ngs/PileupEvent.java\ ngs/PileupEventIterator.java\ ngs/Pileup.java\ ngs/PileupIterator.java\ ngs/Reference.java\ ngs/ReferenceIterator.java\ ngs/ReadCollection.java\ ngs/Package.java\ ngs/itf/Refcount.java\ ngs/itf/StatisticsItf.java\ ngs/itf/FragmentItf.java\ ngs/itf/FragmentIteratorItf.java\ ngs/itf/ReadItf.java\ ngs/itf/ReadIteratorItf.java\ ngs/itf/ReadGroupItf.java\ ngs/itf/ReadGroupIteratorItf.java\ ngs/itf/AlignmentItf.java\ ngs/itf/AlignmentIteratorItf.java\ ngs/itf/PileupEventItf.java\ ngs/itf/PileupEventIteratorItf.java\ ngs/itf/PileupItf.java\ ngs/itf/PileupIteratorItf.java\ ngs/itf/ReferenceItf.java\ ngs/itf/ReferenceIteratorItf.java\ ngs/itf/ReadCollectionItf.java\ gov/nih/nlm/ncbi/ngs/DownloadManager.java\ gov/nih/nlm/ncbi/ngs/FileCreator.java\ gov/nih/nlm/ncbi/ngs/HttpManager.java\ gov/nih/nlm/ncbi/ngs/LibDependencies.java\ gov/nih/nlm/ncbi/ngs/LibManager.java\ gov/nih/nlm/ncbi/ngs/LibPathIterator.java\ gov/nih/nlm/ncbi/ngs/LibVersionChecker.java\ gov/nih/nlm/ncbi/ngs/LMProperties.java\ gov/nih/nlm/ncbi/ngs/Logger.java\ gov/nih/nlm/ncbi/ngs/Manager.java\ gov/nih/nlm/ncbi/ngs/NGS.java\ gov/nih/nlm/ncbi/ngs/Version.java\ gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java\ gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/DependInfo.cmake "--color=" make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/gw-dumper.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building Java objects for ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test/CMakeFiles/test-general-writer.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_sources make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/depend [ 90%] Building CXX object libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch/CMakeFiles/prefetch.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -MF CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o.d -o CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/gw-dumper.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o [ 90%] Building CXX object libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o -MF CMakeFiles/prefetch.dir/kfile-no-q.c.o.d -o CMakeFiles/prefetch.dir/kfile-no-q.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/kfile-no-q.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -MF CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o.d -o CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/fmt.h:24, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = fmt::v8::basic_string_view; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {fmt::v8::basic_string_view, char [3]}]' 1692 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1693 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1694 | detail::mapped_type_constant::value>(args)...} { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'OutputIt fmt::v8::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1710 | return {args...}; | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/format-inl.h:74:14: required from here 74 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:2915:52: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(((const fmt::v8::basic_string_view&)args#0), args#1)' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1566 | const auto& arg = arg_mapper().map(val); | ^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/CMakeFiles/vdb-config.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o -MF CMakeFiles/vdb-config.dir/configure.cpp.o.d -o CMakeFiles/vdb-config.dir/configure.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/configure.cpp make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Build-sra-info.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-alias.dir/link.d "CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o" -o ../../../test-bin/Test_Vdb_dump_view-alias /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target Test_Vdb_dump_view-alias make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-info/CMakeFiles/Build-sra-info.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 91%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -MF CMakeFiles/prefetch.dir/PrfMain.c.o.d -o CMakeFiles/prefetch.dir/PrfMain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfMain.c [ 91%] Built target Build-sra-info [ 91%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o -MF CMakeFiles/vdb-config.dir/util.cpp.o.d -o CMakeFiles/vdb-config.dir/util.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/util.cpp [ 91%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o -MF CMakeFiles/prefetch.dir/prefetch.c.o.d -o CMakeFiles/prefetch.dir/prefetch.c.o -c 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-Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o -MF CMakeFiles/vdb-config.dir/vdb-config.c.o.d -o CMakeFiles/vdb-config.dir/vdb-config.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config.c [ 92%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o -MF CMakeFiles/vdb-config.dir/interactive2.cpp.o.d -o CMakeFiles/vdb-config.dir/interactive2.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/interactive2.cpp [ 92%] Linking CXX executable ../../../test-bin/testAssemblyStatistics cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAssemblyStatistics.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -MF CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o.d -o CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config-model.cpp [ 92%] Built target ngs-src-jar make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o -MF CMakeFiles/prefetch.dir/PrfRetrier.c.o.d -o CMakeFiles/prefetch.dir/PrfRetrier.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfRetrier.c [ 92%] Built target ngs-doc-jar [ 92%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o -MF CMakeFiles/prefetch.dir/PrfOutFile.c.o.d -o CMakeFiles/prefetch.dir/PrfOutFile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfOutFile.c [ 92%] Linking CXX static library ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -P CMakeFiles/ncbi-ngs-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-c++.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libncbi-ngs-c++.a "CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" /usr/bin/ranlib ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs-c++.a libncbi-ngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3.0.9 libncbi-ngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3 libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a libncbi-ngs-c++-static.a /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testAssemblyStatistics.dir/link.d CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -o ../../../test-bin/testAssemblyStatistics /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target ncbi-ngs-c++ make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/depend make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/DependInfo.cmake "--color=" [ 92%] Built target testAssemblyStatistics make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Linking CXX shared library ../../lib/libngs-c++.so [ 92%] Linking CXX static library ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++-shared.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ngs-c++.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Linking CXX static library ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ncbi-ngs.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,--dependency-file,CMakeFiles/ngs-c++-shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libngs-c++.so.3 -o ../../lib/libngs-c++.so.3.0.9 "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" 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"language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadColleir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libngs-c++.a libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3.0.9 libngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3 libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a libngs-c++-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target ngs-c++ make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/depend make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/DependInfo.cmake "--color=" /NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libngs-c++.so.3.0.9 ../../lib/libngs-c++.so.3 ../../lib/libngs-c++.so make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' ction.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs.a.3.0.9 [ 93%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -MF CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o.d -o CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs.a libncbi-ngs.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3.0.9 libncbi-ngs.a.3 [ 93%] Building CXX object test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3 libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -MF CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o.d -o CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup/test-ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a libncbi-ngs-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target ncbi-ngs make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/DependInfo.cmake "--color=" [ 93%] Built target ngs-c++-shared make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -MF CMakeFiles/ngs-pileup.dir/main.cpp.o.d -o CMakeFiles/ngs-pileup.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/main.cpp [ 93%] Linking CXX executable ../../../test-bin/Test_KFF cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFF.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build [ 93%] Building CXX object test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -MF CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o.d -o CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/pileup_estimator.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -MF CMakeFiles/FragTest.dir/FragTest.cpp.o.d -o CMakeFiles/FragTest.dir/FragTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/FragTest.cpp Files/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libncbi-ngs.so.3.0.9 ../../lib/libncbi-ngs.so.3 ../../lib/libncbi-ngs.so make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target ncbi-ngs-shared make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp: In function 'void ncbi::runTest(int, const char**, const char*, const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:271:20: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 271 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:217:24: note: 'gw' was declared here 217 | GeneralWriter *gw; | ^~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KFF.dir/link.d CMakeFiles/Test_KFF.dir/kfftest.cpp.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -o ../../../test-bin/Test_KFF /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmagic make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o -MF CMakeFiles/AlignTest.dir/AlignTest.cpp.o.d -o CMakeFiles/AlignTest.dir/AlignTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignTest.cpp [ 93%] Built target Test_KFF make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/DependInfo.cmake "--color=" [ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -MF CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o.d -o CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignSliceTest.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/DependInfo.cmake "--color=" [ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o -MF CMakeFiles/PileupTest.dir/PileupTest.cpp.o.d -o CMakeFiles/PileupTest.dir/PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/PileupTest.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o -MF CMakeFiles/RefTest.dir/RefTest.cpp.o.d -o CMakeFiles/RefTest.dir/RefTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/RefTest.cpp [ 94%] Linking CXX executable ../../../test-bin/SlowTest_FastqLoader_id2name cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/Test_LOADERFILE cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADERFILE.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/Test_Drivertool_ToolArgs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_ToolArgs.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/Test_VdbValidate_Unit cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VdbValidate_Unit.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/test-general-writer cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-writer.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.d "CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o" -o ../../../test-bin/SlowTest_FastqLoader_id2name ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target SlowTest_FastqLoader_id2name make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADERFILE.dir/link.d "CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o" -o ../../../test-bin/Test_LOADERFILE ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target Test_LOADERFILE [ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_VdbValidate_Unit.dir/link.d "CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o" -o ../../../test-bin/Test_VdbValidate_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 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make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target Test_Drivertool_ToolArgs [ 94%] Built target Test_VdbValidate_Unit make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/depend [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o -MF CMakeFiles/test-ngs.dir/ngstest.cpp.o.d -o CMakeFiles/test-ngs.dir/ngstest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest.cpp [ 94%] Linking CXX executable ../../../test-bin/FragTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragTest.dir/link.txt --verbose=1 [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -MF CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o.d -o CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sra.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-writer.dir/link.d "CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o" -o ../../../test-bin/test-general-writer ../../../ilib/libgeneral-writer.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o [ 94%] Built target test-general-writer cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -MF CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o.d -o CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sradb.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/depend [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -MF CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o.d -o CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -MF CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o.d -o CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_readcollection.cpp [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -MF CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o.d -o CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Linking CXX executable ../../../test-bin/Test_LOADER cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADER.dir/link.txt --verbose=1 [ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -MF CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o.d -o CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_pileup.cpp [ 95%] Linking CXX executable ../../../test-bin/AlignTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignTest.dir/link.txt --verbose=1 [ 95%] Linking CXX executable ../../../test-bin/RefTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/RefTest.dir/link.txt --verbose=1 Note: ngs_test_lib_load.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/FragTest.dir/link.d CMakeFiles/FragTest.dir/FragTest.cpp.o -o ../../../test-bin/FragTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target FragTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADER.dir/link.d CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -o ../../../test-bin/Test_LOADER ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_compiled_test-ngs-java [ 95%] Built target Test_LOADER make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/DependInfo.cmake "--color=" [ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -MF CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o.d -o CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_reference.cpp [ 95%] Linking CXX executable ../../../test-bin/AlignSliceTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignSliceTest.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Linking CXX executable ../../../test-bin/PileupTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/PileupTest.dir/link.txt --verbose=1 [ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o [ 95%] Generating CMakeFiles/test-ngs-java.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -MF CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o.d -o CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_fragmentblob.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/DependInfo.cmake "--color=" [ 96%] Creating Java archive test-ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar @java_class_filelist /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignTest.dir/link.d CMakeFiles/AlignTest.dir/AlignTest.cpp.o -o ../../../test-bin/AlignTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/RefTest.dir/link.d CMakeFiles/RefTest.dir/RefTest.cpp.o -o ../../../test-bin/RefTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Linking CXX executable ../../../test-bin/DumpReferenceFASTA [ 96%] Built target RefTest make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/DumpReferenceFASTA.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../test-bin/test-ngs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs.dir/link.txt --verbose=1 [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o [ 96%] Built target AlignTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -MF CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o.d -o CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_referenceblob.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -MF CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o.d -o CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_byteblob.cpp [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -MF CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o.d -o CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRAtest.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignSliceTest.dir/link.d CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -o ../../../test-bin/AlignSliceTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target AlignSliceTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/PileupTest.dir/link.d CMakeFiles/PileupTest.dir/PileupTest.cpp.o -o ../../../test-bin/PileupTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -MF CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o.d -o CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRADBtest.cpp [ 96%] Built target PileupTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceWindow_Slice_Filtered::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:591:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 591 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/DumpReferenceFASTA.dir/link.d CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -o ../../../test-bin/DumpReferenceFASTA ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:669:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 669 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:696:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 696 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs.dir/link.d "CMakeFiles/test-ngs.dir/ngstest.cpp.o" -o ../../../test-bin/test-ngs -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:719:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 719 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:740:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 740 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target DumpReferenceFASTA [ 96%] Built target test-ngs make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/DependInfo.cmake "--color=" [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -MF CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o.d -o CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1test.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_compiled_ngs-examples make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -MF CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o.d -o CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1PileupTest.cpp [ 96%] Linking C executable ../../../bin/prefetch [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/prefetch.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -MF CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o.d -o CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/test-ngs-vdb.cpp [ 96%] Generating CMakeFiles/ngs-examples.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=test-ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake [ 96%] Creating Java archive ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-examples.jar @java_class_filelist make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target test-ngs-java make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/ref-variation.dir/DependInfo.cmake "--color=" [ 96%] Linking CXX executable ../../../bin/ngs-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-pileup.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/prefetch.dir/link.d "CMakeFiles/prefetch.dir/kfile-no-q.c.o" CMakeFiles/prefetch.dir/PrfMain.c.o CMakeFiles/prefetch.dir/prefetch.c.o CMakeFiles/prefetch.dir/PrfRetrier.c.o CMakeFiles/prefetch.dir/PrfOutFile.c.o -o ../../../bin/prefetch ../../../ilib/libascp.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f prefetch.3.0.9 [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -MF CMakeFiles/ref-variation.dir/common.cpp.o.d -o CMakeFiles/ref-variation.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv prefetch prefetch.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3.0.9 prefetch.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3 prefetch cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 prefetch-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target prefetch make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/var-expand.dir/DependInfo.cmake "--color=" make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/CMakeFiles/sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -MF CMakeFiles/var-expand.dir/common.cpp.o.d -o CMakeFiles/var-expand.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -MF CMakeFiles/sra-search.dir/main.cpp.o.d -o CMakeFiles/sra-search.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-examples.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target ngs-examples make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-pileup.dir/link.d "CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o" "CMakeFiles/ngs-pileup.dir/main.cpp.o" -o ../../../bin/ngs-pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ngs-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ngs-pileup ngs-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3.0.9 ngs-pileup.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3 ngs-pileup make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -MF CMakeFiles/ref-variation.dir/helper.cpp.o.d -o CMakeFiles/ref-variation.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -MF CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search.cpp [ 96%] Built target ngs-pileup [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -MF CMakeFiles/ref-variation.dir/ref-variation.cpp.o.d -o CMakeFiles/ref-variation.dir/ref-variation.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/ref-variation.cpp [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -MF CMakeFiles/var-expand.dir/helper.cpp.o.d -o CMakeFiles/var-expand.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp [ 96%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-spec cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-spec.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = std::__cxx11::basic_string; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, spdlog::stopwatch, long unsigned int}]' 1692 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1693 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1694 | detail::mapped_type_constant::value>(args)...} { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'void spdlog::logger::log_(spdlog::source_loc, spdlog::level::level_enum, spdlog::string_view_t, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; spdlog::string_view_t = fmt::v8::basic_string_view]' 1710 | return {args...}; | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:90:13: required from 'void spdlog::logger::log(spdlog::source_loc, spdlog::level::level_enum, fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 90 | log_(loc, lvl, fmt, std::forward(args)...); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:96:12: required from 'void spdlog::logger::log(spdlog::level::level_enum, fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 96 | log(source_loc{}, lvl, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:158:12: required from 'void spdlog::logger::info(fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 158 | log(level::info, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/spdlog.h:157:31: required from 'void spdlog::info(fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, stopwatch&, long unsigned int>]' 157 | default_logger_raw()->info(fmt, std::forward(args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/spot_assembly.hpp:386:21: required from here 386 | spdlog::info("{} Batch insert: {:.3}, {:L} reads", batch_idx, sw, new_batch.m_spot_map->size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:370:68: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(args#0, ((const spdlog::stopwatch&)args#1), ((const long unsigned int&)args#2))' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1566 | const auto& arg = arg_mapper().map(val); | ^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ [ 96%] Linking CXX executable ../../../test-bin/Test_Align_samextract cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Align_samextract.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-spec.dir/link.d "CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o" -o ../../../test-bin/Test_Vdb_dump_view-spec /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_Vdb_dump_view-spec [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -MF CMakeFiles/var-expand.dir/var-expand.cpp.o.d -o CMakeFiles/var-expand.dir/var-expand.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/var-expand.cpp [ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqLoader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Align_samextract.dir/link.d "CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o" -o ../../../test-bin/Test_Align_samextract -lsam-extract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_Align_samextract [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -MF CMakeFiles/sra-search.dir/searchblock.cpp.o.d -o CMakeFiles/sra-search.dir/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqLoader ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 96%] Built target Test_FastqLoader_WbFastqLoader [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp [ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqParse cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.txt --verbose=1 [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqParse ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 96%] Built target Test_FastqLoader_WbFastqParse [ 96%] Linking CXX executable ../../bin/gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/gw-dumper.dir/link.txt --verbose=1 [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 96%] Linking CXX executable ../../../bin/vdb-config cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-config.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../test-bin/Test_Drivertool_FilePath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_FilePath.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/gw-dumper.dir/link.d "CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o" -o ../../bin/gw-dumper ../../ilib/libgeneral-writer.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target gw-dumper [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -MF CMakeFiles/sra-search.dir/referencematchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 96%] Linking CXX executable ../../../bin/var-expand cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/var-expand.dir/link.txt --verbose=1 make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search-slow.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_FilePath.dir/link.d "CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o" -o ../../../test-bin/Test_Drivertool_FilePath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_Drivertool_FilePath /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-config.dir/link.d "CMakeFiles/vdb-config.dir/configure.cpp.o" "CMakeFiles/vdb-config.dir/util.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config.c.o" "CMakeFiles/vdb-config.dir/interactive2.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o" -o ../../../bin/vdb-config ../../../ilib/libtui_cpp.a ../../../ilib/libtui.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-config.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-config vdb-config.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3.0.9 vdb-config.3 [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3 vdb-config cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -MF CMakeFiles/sra-search.dir/vdb-search.cpp.o.d -o CMakeFiles/sra-search.dir/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E copy /usr/include/ncbi-vdb/kfg/ncbi/default.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/default.kfg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Linking CXX executable ../../../test-bin/SlowTest_Align_estimator cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Align_estimator.dir/link.txt --verbose=1 [ 96%] Built target vdb-config make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-searchblock.cpp [ 97%] Linking CXX executable ../../../test-bin/test-vdb-config-model cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb-config-model.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/var-expand.dir/link.d "CMakeFiles/var-expand.dir/common.cpp.o" "CMakeFiles/var-expand.dir/helper.cpp.o" "CMakeFiles/var-expand.dir/var-expand.cpp.o" -o ../../../bin/var-expand ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f var-expand.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv var-expand var-expand.3.0.9 make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/DependInfo.cmake "--color=" [ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3.0.9 var-expand.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3 var-expand [ 97%] Linking CXX executable ../../../test-bin/Test_Ngs_Pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Ngs_Pileup.dir/link.txt --verbose=1 make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target var-expand make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/Build-prefetch.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build [ 97%] Building CXX object tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -MF CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o.d -o CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats/pileup-stats.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/prefetch/CMakeFiles/Build-prefetch.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/ngs/testy-the-bear\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -MF CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o.d -o CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear/testy-the-bear.cpp [ 97%] Built target Build-ngs-pileup [ 97%] Built target Build-prefetch [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp [ 98%] Linking CXX executable ../../../bin/sam-factory cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-factory.dir/link.txt --verbose=1 [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Align_estimator.dir/link.d CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -o ../../../test-bin/SlowTest_Align_estimator ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target SlowTest_Align_estimator make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb-config-model.dir/link.d "CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o" -o ../../../test-bin/test-vdb-config-model /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Ngs_Pileup.dir/link.d "CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o" -o ../../../test-bin/Test_Ngs_Pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-vdb-config-model make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar/CMakeFiles/Build-kar.dir/DependInfo.cmake "--color=" [ 98%] Built target Test_Ngs_Pileup [ 98%] Built target Build-vdb-config [ 98%] Built target Build-vdb-validate [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/kar/CMakeFiles/Build-kar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o [ 98%] Built target Build-kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-factory.dir/link.d "CMakeFiles/sam-factory.dir/sam-factory.cpp.o" -o ../../../bin/sam-factory /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target sam-factory [ 98%] Linking CXX executable ../../../../test-bin/testy-the-bear cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/cmake -E cmake_link_script CMakeFiles/testy-the-bear.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../test-bin/Test_Drivertool_RunSource cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_RunSource.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testy-the-bear.dir/link.d "CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o" -o ../../../../test-bin/testy-the-bear /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a ../../../../lib/libncbi-ngs-c++.a ../../../../lib/libncbi-ngs.a ../../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target testy-the-bear [ 98%] Linking CXX executable ../../../test-bin/test-byteblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-byteblob.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../test-bin/test-vdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_RunSource.dir/link.d "CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" -o ../../../test-bin/Test_Drivertool_RunSource /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target Test_Drivertool_RunSource [ 98%] Linking CXX executable ../../../bin/ref-variation cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/ref-variation.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-byteblob.dir/link.d "CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o" -o ../../../test-bin/test-byteblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-byteblob /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb.dir/link.d "CMakeFiles/test-vdb.dir/test-vdb.cpp.o" -o ../../test-bin/test-vdb -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-vdb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ref-variation.dir/link.d "CMakeFiles/ref-variation.dir/common.cpp.o" "CMakeFiles/ref-variation.dir/helper.cpp.o" "CMakeFiles/ref-variation.dir/ref-variation.cpp.o" -o ../../../bin/ref-variation ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ref-variation ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3.0.9 ref-variation.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3 ref-variation make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target ref-variation [ 98%] Linking CXX executable ../../../bin/pileup-stats cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pileup-stats.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../bin/sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-search.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pileup-stats.dir/link.d "CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o" -o ../../../bin/pileup-stats ../../../ilib/libgeneral-writer.a ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pileup-stats pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3.0.9 pileup-stats.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3 pileup-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target pileup-stats [ 98%] Linking CXX executable ../../../test-bin/test-fragmentblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-fragmentblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-search.dir/link.d "CMakeFiles/sra-search.dir/main.cpp.o" "CMakeFiles/sra-search.dir/searchblock.cpp.o" "CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/referencematchiterator.cpp.o" "CMakeFiles/sra-search.dir/vdb-search.cpp.o" -o ../../../bin/sra-search ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libtk-version.a -Wl,-Bstatic -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-search sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3.0.9 sra-search.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3 sra-search make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target sra-search make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target Build-sra-search /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-fragmentblob.dir/link.d "CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o" -o ../../../test-bin/test-fragmentblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-fragmentblob [ 98%] Linking CXX executable ../../../../test-bin/test-searchblock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-searchblock.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1pileup++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1pileup++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-searchblock.dir/link.d "CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o" "CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o" -o ../../../../test-bin/test-searchblock ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-searchblock /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1pileup++.dir/link.d "CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o" -o ../../../test-bin/test-ngs_csra1pileup++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Linking CXX executable ../../../../test-bin/test-sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search.dir/link.txt --verbose=1 [ 98%] Built target test-ngs_csra1pileup++ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search.dir/link.d "CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-sra-search [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_pileup.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_pileup.dir/link.d "CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o" -o ../../../test-bin/test-ngs_csra1_pileup -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1_pileup [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_refwin cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_refwin.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../../test-bin/test-sra-search-slow /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_refwin.dir/link.d "CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o" -o ../../../test-bin/test-ngs_csra1_refwin -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search-slow.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1_refwin [ 98%] Linking CXX executable ../../../test-bin/test-ngs-vdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search-slow.dir/link.d "CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search-slow ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sra_c++ [ 98%] Built target test-sra-search-slow cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs-vdb.dir/link.d "CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o" -o ../../../test-bin/test-ngs-vdb ../../../ilib/libtk-version.a ../../../ilib/libngs-vdb.a -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs-vdb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra_c++.dir/link.d "CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o" -o ../../../test-bin/test-ngs_sra_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sra_c++ [ 98%] Linking CXX executable ../../../test-bin/test-referenceblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-referenceblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-referenceblob.dir/link.d "CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o" -o ../../../test-bin/test-referenceblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-referenceblob [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sradb_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb_c++.dir/link.d "CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o" -o ../../../test-bin/test-ngs_sradb_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sradb_c++ [ 99%] Linking CXX executable ../../../test-bin/test-ngs_reference cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_reference.dir/link.txt --verbose=1 [ 99%] Linking CXX executable ../../../test-bin/Test_SraInfo_Unit cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraInfo_Unit.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_reference.dir/link.d "CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o" -o ../../../test-bin/test-ngs_reference -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_SraInfo_Unit.dir/link.d "CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o" -o ../../../test-bin/Test_SraInfo_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_reference [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_readcollection cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_readcollection.dir/link.txt --verbose=1 [ 99%] Built target Test_SraInfo_Unit /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_readcollection.dir/link.d "CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o" -o ../../../test-bin/test-ngs_csra1_readcollection -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1_readcollection [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sradb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb.dir/link.d "CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o" -o ../../../test-bin/test-ngs_sradb -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sradb /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3SelectNew': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115649:10: warning: function may return address of local variable [-Wreturn-local-addr] 115649 | return pNew; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115609:10: note: declared here 115609 | Select standin; | ^~~~~~~ [ 99%] Linking CXX executable ../../../../test-bin/test-general-loader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-loader.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-loader.dir/link.d "CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o" "CMakeFiles/test-general-loader.dir/testsource.cpp.o" -o ../../../../test-bin/test-general-loader ../../../../ilib/libgeneral-writer.a -lkapp -lktst ../../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-general-loader [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sra cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra.dir/link.d "CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o" -o ../../../test-bin/test-ngs_sra -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sra [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1.dir/link.txt --verbose=1 [ 99%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastq_dflt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1.dir/link.d "CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o" -o ../../../test-bin/test-ngs_csra1 -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastq_dflt ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target Test_FastqLoader_WbFastq_dflt /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3VdbeExpandSql': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_c++.dir/link.d "CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o" -o ../../../test-bin/test-ngs_csra1_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1_c++ [ 99%] Linking C static library ../../ilib/libvdb-sqlite.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -P CMakeFiles/vdb-sqlite.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sqlite.dir/link.txt --verbose=1 /usr/bin/ar qc ../../ilib/libvdb-sqlite.a "CMakeFiles/vdb-sqlite.dir/sqlite3.c.o" "CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o" /usr/bin/ranlib ../../ilib/libvdb-sqlite.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target vdb-sqlite make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/depend make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/fastconv.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o -MF CMakeFiles/fastconv.dir/fastconv.c.o.d -o CMakeFiles/fastconv.dir/fastconv.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/fastconv.c [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o -MF CMakeFiles/vdb-sql.dir/vdb_shell.c.o.d -o CMakeFiles/vdb-sql.dir/vdb_shell.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/vdb_shell.c [ 99%] Linking C executable ../../../bin/fastconv cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastconv.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastconv.dir/link.d CMakeFiles/fastconv.dir/fastconv.c.o -o ../../../bin/fastconv /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastconv.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastconv fastconv.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3.0.9 fastconv.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3 fastconv make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target fastconv [100%] Linking C executable ../../../bin/vdb-sql cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sql.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-sql.dir/link.d "CMakeFiles/vdb-sql.dir/vdb_shell.c.o" -o ../../../bin/vdb-sql ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-sql.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-sql vdb-sql.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3.0.9 vdb-sql.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3 vdb-sql make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target vdb-sql [100%] Linking CXX executable ../../../bin/bam-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam-load.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bam-load.dir/link.d "CMakeFiles/bam-load.dir/bam-loader.c.o" "CMakeFiles/bam-load.dir/bam.c.o" "CMakeFiles/bam-load.dir/sam.c.o" "CMakeFiles/bam-load.dir/alignment-writer.c.o" "CMakeFiles/bam-load.dir/reference-writer.c.o" "CMakeFiles/bam-load.dir/sequence-writer.c.o" "CMakeFiles/bam-load.dir/loader-imp.c.o" "CMakeFiles/bam-load.dir/mem-bank.cpp.o" "CMakeFiles/bam-load.dir/low-match-count.cpp.o" -o ../../../bin/bam-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lz cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f bam-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv bam-load bam-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3.0.9 bam-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3 bam-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target bam-load make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/depend make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/depend make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/depend make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target Build-sra-sort [100%] Built target Build-bam-load [100%] Built target Build-sam-dump [100%] Built target Build-fasterq-dump [100%] Linking CXX executable ../../../bin/sam-analyze cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-analyze.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-analyze.dir/link.d "CMakeFiles/sam-analyze.dir/main.cpp.o" "CMakeFiles/sam-analyze.dir/sqlite3.c.o" -o ../../../bin/sam-analyze /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target sam-analyze make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' cd obj-x86_64-linux-gnu && \ ctest --force-new-ctest-process --verbose -j1 -LE online UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 9 Start 9: Test_NGS_Python_install 9: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-python/setup.py" "-q" "install" "--user" 9: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-python 9: Environment variables: 9: PYTHONUSERBASE=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/python 9: Test timeout computed to be: 1500 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` directly. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` and ``easy_install``. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://github.com/pypa/setuptools/issues/917 for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: build/bdist.linux-x86_64/egg/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' 9: arr = re.split('\.\s*|\-\s*|\s+', version_str) 9: zip_safe flag not set; analyzing archive contents... 1/187 Test #9: Test_NGS_Python_install ........................... Passed 0.74 sec test 15 Start 15: Ngs_MakeDB 15: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/ngs-makedb 15: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/data 15: Test timeout computed to be: 1500 15: Running 1 test case... 15: SparseFragmentBlobs (0 s) 15: 15: *** No errors detected (0 s total) 2/187 Test #15: Ngs_MakeDB ........................................ Passed 0.10 sec test 16 Start 16: Test_Ngs 16: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-ngs 16: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test 16: Test timeout computed to be: 1500 16: 16: *** No errors detected (0 s total) 3/187 Test #16: Test_Ngs .......................................... Passed 0.00 sec test 32 Start 32: GeneralWriterTest 32: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-writer 32: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test 32: Test timeout computed to be: 1500 32: CreateGw Success 32: --------------------------------- 32: addTable Success 32: --------------------------------- 32: addColumn Success 32: --------------------------------- 32: dbAddDatabase Success 32: --------------------------------- 32: dbAddTable Success 32: --------------------------------- 32: write Success 32: --------------------------------- 32: setDBMetadataNode Success 32: --------------------------------- 32: setTblMetadataNode Success 32: --------------------------------- 32: setColMetadataNode Success 32: --------------------------------- 32: setProgMsg Success 32: --------------------------------- 32: Attempting add table after endStream 32: state violation adding table 32: addTable correctly failed 32: endStream Success 32: --------------------------------- 4/187 Test #32: GeneralWriterTest ................................. Passed 0.00 sec test 33 Start 33: Ref-Variation-1.0 33: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "ref-variation" 33: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 33: Test timeout computed to be: 1500 33: ./have-access.sh: 6: vdb-config: not found 33: no access to repository, skipping ref-variation test... 5/187 Test #33: Ref-Variation-1.0 ................................. Passed 0.00 sec test 34 Start 34: Var-Expand-1.0 34: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "var-expand" 34: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 34: Test timeout computed to be: 1500 34: ./have-access.sh: 6: vdb-config: not found 34: no access to repository, skipping var-expand test... 6/187 Test #34: Var-Expand-1.0 .................................... Passed 0.00 sec test 35 Start 35: SearchBlockWhiteBox 35: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-searchblock 35: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test 35: Test timeout computed to be: 1500 35: Running 8 test cases... 35: FgrepDumb (0 s) 35: SearchFgrepBoyerMoore (0 s) 35: SearchFgrepAho (0 s) 35: SearchAgrepDP (0 s) 35: SearchNucStrstr_NoExpr_NoCoords (0 s) 35: SearchNucStrstr_NoExpr_Coords_NotSupported (0 s) 35: SearchNucStrstr_Expr_Coords (0 s) 35: SearchSmithWaterman_Coords_NotSupported (0 s) 35: 35: *** No errors detected (0 s total) 7/187 Test #35: SearchBlockWhiteBox ............................... Passed 0.00 sec test 38 Start 38: SraSearch-1.0-h 38: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.0-h" "--args" "-h" 38: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 38: Test timeout computed to be: 1500 38: running test case 1.0-h... passed 8/187 Test #38: SraSearch-1.0-h ................................... Passed 0.13 sec test 39 Start 39: SraSearch-1.1-help 39: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.1-help" "--args" "--help" 39: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 39: Test timeout computed to be: 1500 39: running test case 1.1-help... passed 9/187 Test #39: SraSearch-1.1-help ................................ Passed 0.09 sec test 40 Start 40: SraSearch-1.2-V 40: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search -V" "3.0.9" 40: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 40: Test timeout computed to be: 1500 40: sra-search : 3.0.9 10/187 Test #40: SraSearch-1.2-V ................................... Passed 0.01 sec test 41 Start 41: SraSearch-1.3-version 41: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search --version" "3.0.9" 41: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 41: Test timeout computed to be: 1500 41: sra-search : 3.0.9 11/187 Test #41: SraSearch-1.3-version ............................. Passed 0.01 sec test 42 Start 42: SraSearch-2.0-no-args 42: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.0-no-args" "--rc" "3" 42: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 42: Test timeout computed to be: 1500 42: running test case 2.0-no-args... passed 12/187 Test #42: SraSearch-2.0-no-args ............................. Passed 0.39 sec test 43 Start 43: SraSearch-2.1-no-run 43: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.1-no-run" "--rc" "3" "--args" "AGCT" 43: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 43: Test timeout computed to be: 1500 43: running test case 2.1-no-run... passed 13/187 Test #43: SraSearch-2.1-no-run .............................. Passed 0.75 sec test 44 Start 44: SraSearch-2.2-missing-algorithm 44: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.2-missing-algorithm" "--rc" "3" "--args" "AGCT SRR000001 -a" 44: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 44: Test timeout computed to be: 1500 44: running test case 2.2-missing-algorithm... passed 14/187 Test #44: SraSearch-2.2-missing-algorithm ................... Passed 0.45 sec test 45 Start 45: SraSearch-2.3-bad-algorithm 45: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.3-bad-algorithm" "--rc" "3" "--args" "--algorithm bad AGCT SRR000001" 45: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 45: Test timeout computed to be: 1500 45: running test case 2.3-bad-algorithm... passed 15/187 Test #45: SraSearch-2.3-bad-algorithm ....................... Passed 0.60 sec test 61 Start 61: SraSearch-5.1-run-not-nucstrstr-with-expression 61: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "5.1-run-not-nucstrstr-with-expression" "--args" "AAAAAAACCCCCCCAAAAAAACCCCCCC\|\|AGCTAGCTAGCT --algorithm FgrepStandard --expression SRR000001" "--rc" "3" 61: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 61: Test timeout computed to be: 1500 61: running test case 5.1-run-not-nucstrstr-with-expression... passed 16/187 Test #61: SraSearch-5.1-run-not-nucstrstr-with-expression ... Passed 0.43 sec test 62 Start 62: SraSearch-6.0.1-imperfect-match-no-arg 62: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.1-imperfect-match-no-arg" "--args" "AGCTAGCTAGCT SRR000001 -S" "--rc" "3" 62: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 62: Test timeout computed to be: 1500 62: running test case 6.0.1-imperfect-match-no-arg... passed 17/187 Test #62: SraSearch-6.0.1-imperfect-match-no-arg ............ Passed 0.14 sec test 63 Start 63: SraSearch-6.0.2-imperfect-match-bad-arg 63: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.2-imperfect-match-bad-arg" "--args" "AGCTAGCTAGCT SRR000001 -S qq" "--rc" "3" 63: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 63: Test timeout computed to be: 1500 63: running test case 6.0.2-imperfect-match-bad-arg... passed 18/187 Test #63: SraSearch-6.0.2-imperfect-match-bad-arg ........... Passed 0.34 sec test 64 Start 64: SraSearch-6.0.3-imperfect-match-default 64: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.3-imperfect-match-default" "--args" "AGCTAGCTAGCT -S 90 SRR000001" "--rc" "3" 64: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 64: Test timeout computed to be: 1500 64: running test case 6.0.3-imperfect-match-default... passed 19/187 Test #64: SraSearch-6.0.3-imperfect-match-default ........... Passed 0.46 sec test 65 Start 65: SraSearch-6.1-imperfect-match-fgrep-standard 65: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.1-imperfect-match-fgrep-standard" "--args" "AGCTAGCTAGCT --score 90 -a FgrepStandard SRR000001" "--rc" "3" 65: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 65: Test timeout computed to be: 1500 65: running test case 6.1-imperfect-match-fgrep-standard... passed 20/187 Test #65: SraSearch-6.1-imperfect-match-fgrep-standard ...... Passed 0.56 sec test 66 Start 66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore 66: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.2-imperfect-match-fgrep-boyer-moore" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepBoyerMoore SRR000001" "--rc" "3" 66: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 66: Test timeout computed to be: 1500 66: running test case 6.2-imperfect-match-fgrep-boyer-moore... passed 21/187 Test #66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore ... Passed 0.04 sec test 67 Start 67: SraSearch-6.3-imperfect-match-fgrep-aho 67: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.3-imperfect-match-fgrep-aho" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepAho SRR000001" "--rc" "3" 67: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 67: Test timeout computed to be: 1500 67: running test case 6.3-imperfect-match-fgrep-aho... passed 22/187 Test #67: SraSearch-6.3-imperfect-match-fgrep-aho ........... Passed 0.02 sec test 72 Start 72: SraSearch-6.8-imperfect-match-nucstrstr 72: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.8-imperfect-match-nucstrstr" "--args" "AGCTAGCTAGCT --score 90 --algorithm NucStrstr SRR000001" "--rc" "3" 72: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 72: Test timeout computed to be: 1500 72: running test case 6.8-imperfect-match-nucstrstr... passed 23/187 Test #72: SraSearch-6.8-imperfect-match-nucstrstr ........... Passed 0.01 sec test 74 Start 74: SraSearch-7.0.1-threads-no-arg 74: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.1-threads-no-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 -T" 74: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 74: Test timeout computed to be: 1500 74: running test case 7.0.1-threads-no-arg... passed 24/187 Test #74: SraSearch-7.0.1-threads-no-arg .................... Passed 0.02 sec test 75 Start 75: SraSearch-7.0.2-threads-bad-arg 75: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.2-threads-bad-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 --threads -1" 75: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 75: Test timeout computed to be: 1500 75: running test case 7.0.2-threads-bad-arg... passed 25/187 Test #75: SraSearch-7.0.2-threads-bad-arg ................... Passed 0.02 sec test 80 Start 80: SlowTest_SraSearch-8.0-nothing-found 80: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "8.0-nothing-found" "--rc" "3" "--args" "TTTTTTTTAAAAAAACCCC -T 1 SRR000001" 80: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 80: Test timeout computed to be: 1500 80: running test case 8.0-nothing-found... passed 26/187 Test #80: SlowTest_SraSearch-8.0-nothing-found .............. Passed 1.05 sec test 84 Start 84: SraSearch-9.3-reference-expression 84: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "9.3-reference-expression" "--args" "ACGTAGGGTCC SRR600094 --reference --expression" "--rc" "3" 84: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 84: Test timeout computed to be: 1500 84: running test case 9.3-reference-expression... passed 27/187 Test #84: SraSearch-9.3-reference-expression ................ Passed 0.29 sec test 86 Start 86: GeneralLoaderWhiteBox 86: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-loader 86: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 86: Test timeout computed to be: 1500 86: Unpacked protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) 86: BadSignature (0 s) 86: BadEndianness (0 s) 86: ReverseEndianness (0 s) 86: LaterVersion (0 s) 86: BadSchemaFileName (0 s) 86: BadSchemaFileName_Long (0 s) 86: BadSchemaName (0 s) 86: BadSchemaName_Long (0 s) 86: BadTableName (0 s) 86: BadTableName_Long (0 s) 86: DuplicateTableId (0 s) 86: BadColumnName (0 s) 86: BadTableId (0 s) 86: DuplicateColumnName (0 s) 86: DuplicateColumnId (0 s) 86: NoOpenStreamEvent (0 s) 86: NoCloseStreamEvent (0 s) 86: NoColumns (0 s) 86: SoftwareName (0 s) 86: SoftwareName_BadVersion (0 s) 86: DBAddDatabase (0 s) 86: DBAddSubDatabase (0 s) 86: DBAddTable (0 s) 86: DBAddTableToSubDb (0 s) 86: DBMetadataNode (0 s) 86: SubDBMetadataNode (0 s) 86: TblMetadataNode (0 s) 86: ColMetadataNode (0 s) 86: NoData (0 s) 86: Chunk_BadColumnId (0 s) 86: WriteNoCommit (0 s) 86: CommitBadTableId (0 s) 86: OneColumnOneCellOneChunk (0 s) 86: OneColumnOneCellOneChunk_Long (0 s) 86: OneColumnOneCellManyChunks (0 s) 86: IntegerCompression_MinimumCompression (0 s) 86: IntegerCompression_MaximumCompression (0 s) 86: IntegerCompression_MultipleValues (0 s) 86: OneColumnDefaultNoWrite (0 s) 86: OneColumnDefaultNoWrite_Long (0 s) 86: MoveAhead (0 s) 86: OneColumnDefaultOverwite (0 s) 86: OneColumnChangeDefault (0 s) 86: OneColumnDataAndDefaultsMixed (0 s) 86: TwoColumnsFullRow (0 s) 86: TwoColumnsIncompleteRow (0 s) 86: TwoColumnsPartialRowWithDefaults (0 s) 86: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 86: EmptyDefault_String (0 s) 86: EmptyDefault_Int (0 s) 86: MultipleTables_Multiple_Columns_MultipleRows (0 s) 86: AdditionalSchemaIncludePaths_Single (0 s) 86: AdditionalSchemaIncludePaths_Multiple (0 s) 86: AdditionalSchemaFiles_Single (0 s) 86: AdditionalSchemaFiles_Multiple (0 s) 86: ErrorMessage (0 s) 86: ErrorMessage_Long (0 s) 86: LogMessage (0 s) 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: 86: *** No errors detected (2 s total) 86: Packed protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) 86: BadSignature (0 s) 86: BadEndianness (0 s) 86: ReverseEndianness (0 s) 86: LaterVersion (0 s) 86: BadSchemaFileName (0 s) 86: BadSchemaFileName_Long (0 s) 86: BadSchemaName (0 s) 86: BadSchemaName_Long (0 s) 86: BadTableName (0 s) 86: BadTableName_Long (0 s) 86: DuplicateTableId (0 s) 86: BadColumnName (0 s) 86: BadTableId (0 s) 86: DuplicateColumnName (0 s) 86: DuplicateColumnId (0 s) 86: NoOpenStreamEvent (0 s) 86: NoCloseStreamEvent (0 s) 86: NoColumns (0 s) 86: SoftwareName (0 s) 86: SoftwareName_BadVersion (0 s) 86: DBAddDatabase (0 s) 86: DBAddSubDatabase (0 s) 86: DBAddTable (0 s) 86: DBAddTableToSubDb (0 s) 86: DBMetadataNode (0 s) 86: SubDBMetadataNode (0 s) 86: TblMetadataNode (0 s) 86: ColMetadataNode (0 s) 86: NoData (0 s) 86: Chunk_BadColumnId (0 s) 86: WriteNoCommit (0 s) 86: CommitBadTableId (0 s) 86: OneColumnOneCellOneChunk (0 s) 86: OneColumnOneCellOneChunk_Long (0 s) 86: OneColumnOneCellManyChunks (0 s) 86: IntegerCompression_MinimumCompression (0 s) 86: IntegerCompression_MaximumCompression (0 s) 86: IntegerCompression_MultipleValues (0 s) 86: OneColumnDefaultNoWrite (0 s) 86: OneColumnDefaultNoWrite_Long (0 s) 86: MoveAhead (0 s) 86: OneColumnDefaultOverwite (0 s) 86: OneColumnChangeDefault (0 s) 86: OneColumnDataAndDefaultsMixed (0 s) 86: TwoColumnsFullRow (0 s) 86: TwoColumnsIncompleteRow (0 s) 86: TwoColumnsPartialRowWithDefaults (0 s) 86: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 86: EmptyDefault_String (0 s) 86: EmptyDefault_Int (0 s) 86: MultipleTables_Multiple_Columns_MultipleRows (0 s) 86: AdditionalSchemaIncludePaths_Single (0 s) 86: AdditionalSchemaIncludePaths_Multiple (0 s) 86: AdditionalSchemaFiles_Single (0 s) 86: AdditionalSchemaFiles_Multiple (0 s) 86: ErrorMessage (0 s) 86: ErrorMessage_Long (0 s) 86: LogMessage (0 s) 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: 86: *** No errors detected (3 s total) 28/187 Test #86: GeneralLoaderWhiteBox ............................. Passed 6.05 sec test 87 Start 87: GWDumper 87: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-gw-dumper 87: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test 87: Test timeout computed to be: 1500 29/187 Test #87: GWDumper .......................................... Passed 0.00 sec test 88 Start 88: makeinputs 88: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/makeinputs 88: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 88: Test timeout computed to be: 1500 30/187 Test #88: makeinputs ........................................ Passed 0.00 sec test 89 Start 89: GeneralLoader-1.0-Basic-Unpacked 89: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1" "0" "-I/usr/include/ncbi-vdb" 89: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 89: Test timeout computed to be: 1500 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1 0 -I/usr/include/ncbi-vdb 89: running test case 1 89: cat input/1.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stderr 89: Load succeeded, dumping and matching stdout 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stderr 31/187 Test #89: GeneralLoader-1.0-Basic-Unpacked .................. Passed 0.47 sec test 90 Start 90: GeneralLoader-1.1-Basic-Packed 90: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1packed" "0" "-I/usr/include/ncbi-vdb" 90: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 90: Test timeout computed to be: 1500 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1packed 0 -I/usr/include/ncbi-vdb 90: running test case 1packed 90: cat input/1packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stderr 90: Load succeeded, dumping and matching stdout 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stderr 32/187 Test #90: GeneralLoader-1.1-Basic-Packed .................... Passed 0.30 sec test 91 Start 91: GeneralLoader-1.2-TargetDbOverride 91: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1override" "0" "-I/usr/include/ncbi-vdb --target actual/1override/db" 91: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 91: Test timeout computed to be: 1500 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1override 0 -I/usr/include/ncbi-vdb --target actual/1override/db 91: running test case 1override 91: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb --target actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 91: Load succeeded, dumping and matching stdout 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr 33/187 Test #91: GeneralLoader-1.2-TargetDbOverride ................ Passed 0.31 sec test 92 Start 92: GeneralLoader-1.3-TargetDbOverrideShorthand 92: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1override" "0" "-I/usr/include/ncbi-vdb -T actual/1override/db" 92: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 92: Test timeout computed to be: 1500 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1override 0 -I/usr/include/ncbi-vdb -T actual/1override/db 92: running test case 1override 92: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -T actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 92: Load succeeded, dumping and matching stdout 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr 34/187 Test #92: GeneralLoader-1.3-TargetDbOverrideShorthand ....... Passed 0.35 sec test 93 Start 93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked 93: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "2" "3" "-I/usr/include/ncbi-vdb -L=err" 93: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 93: Test timeout computed to be: 1500 93: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 2 3 -I/usr/include/ncbi-vdb -L=err 93: running test case 2 93: cat input/2.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stderr 93: Load failed as expected, matching stderr 35/187 Test #93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked ...... Passed 0.18 sec test 94 Start 94: GeneralLoader-2.1-ErrorMessageEvent-Packed 94: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "2packed" "3" "-I/usr/include/ncbi-vdb -L=err" 94: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 94: Test timeout computed to be: 1500 94: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 2packed 3 -I/usr/include/ncbi-vdb -L=err 94: running test case 2packed 94: cat input/2packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stderr 94: Load failed as expected, matching stderr 36/187 Test #94: GeneralLoader-2.1-ErrorMessageEvent-Packed ........ Passed 0.42 sec test 95 Start 95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked 95: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "3" "0" "-I/usr/include/ncbi-vdb" 95: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 95: Test timeout computed to be: 1500 95: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 3 0 -I/usr/include/ncbi-vdb 95: running test case 3 95: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 95: Load succeeded, dumping and matching stdout 95: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr 37/187 Test #95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked ..... Passed 0.46 sec test 96 Start 96: GeneralLoader-3.1-EmptyDefaultValues-Packed 96: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "3" "0" "-I/usr/include/ncbi-vdb" 96: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 96: Test timeout computed to be: 1500 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 3 0 -I/usr/include/ncbi-vdb 96: running test case 3 96: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 96: Load succeeded, dumping and matching stdout 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr 38/187 Test #96: GeneralLoader-3.1-EmptyDefaultValues-Packed ....... Passed 0.52 sec test 97 Start 97: GeneralLoader-4.0-MoveAheadEvent-Unpacked 97: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "4" "0" "-I/usr/include/ncbi-vdb" 97: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 97: Test timeout computed to be: 1500 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 4 0 -I/usr/include/ncbi-vdb 97: running test case 4 97: cat input/4.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stderr 97: Load succeeded, dumping and matching stdout 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stderr 39/187 Test #97: GeneralLoader-4.0-MoveAheadEvent-Unpacked ......... Passed 0.32 sec test 98 Start 98: GeneralLoader-4.1-MoveAheadEvent-Packed 98: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "4packed" "0" "-I/usr/include/ncbi-vdb" 98: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 98: Test timeout computed to be: 1500 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 4packed 0 -I/usr/include/ncbi-vdb 98: running test case 4packed 98: cat input/4packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stderr 98: Load succeeded, dumping and matching stdout 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stderr 40/187 Test #98: GeneralLoader-4.1-MoveAheadEvent-Packed ........... Passed 0.49 sec test 99 Start 99: GeneralLoader-5.0-IntegerConversion 99: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "5packed" "0" "-I/usr/include/ncbi-vdb" 99: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 99: Test timeout computed to be: 1500 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 5packed 0 -I/usr/include/ncbi-vdb 99: running test case 5packed 99: cat input/5packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stderr 99: Load succeeded, dumping and matching stdout 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stderr 41/187 Test #99: GeneralLoader-5.0-IntegerConversion ............... Passed 0.35 sec test 100 Start 100: GeneralLoader-6.0-SoftwareName-Unpacked 100: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "6" "0" "-L=info -I/usr/include/ncbi-vdb" "SOFTWARE/formatter" 100: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 100: Test timeout computed to be: 1500 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 6 0 -L=info -I/usr/include/ncbi-vdb SOFTWARE/formatter 100: running test case 6 100: cat input/6.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stderr 100: Load succeeded, dumping and matching stdout 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stderr 42/187 Test #100: GeneralLoader-6.0-SoftwareName-Unpacked ........... Passed 0.18 sec test 101 Start 101: GeneralLoader-6.1-SoftwareName-Packed 101: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "6packed" "0" "-L=info -I/usr/include/ncbi-vdb" "SOFTWARE/formatter" 101: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 101: Test timeout computed to be: 1500 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 6packed 0 -L=info -I/usr/include/ncbi-vdb SOFTWARE/formatter 101: running test case 6packed 101: cat input/6packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stderr 101: Load succeeded, dumping and matching stdout 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stderr 43/187 Test #101: GeneralLoader-6.1-SoftwareName-Packed ............. Passed 0.40 sec test 102 Start 102: bio-end-makeinputs 102: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/bio-end-makeinputs 102: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 102: Test timeout computed to be: 1500 44/187 Test #102: bio-end-makeinputs ................................ Passed 0.00 sec test 103 Start 103: BioEnd-Excl-1 103: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/usr/include/ncbi-vdb" "-L=debug" 103: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 103: Test timeout computed to be: 1500 103: running test bio-end:excl-1 45/187 Test #103: BioEnd-Excl-1 ..................................... Passed 0.23 sec test 104 Start 104: BioEnd-Excl-2 104: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-2" "0" "n" "-I/usr/include/ncbi-vdb" 104: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 104: Test timeout computed to be: 1500 104: running test bio-end:excl-2 46/187 Test #104: BioEnd-Excl-2 ..................................... Passed 0.27 sec test 105 Start 105: BioEnd-Excl-3 105: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-3" "0" "n" "-I/usr/include/ncbi-vdb" 105: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 105: Test timeout computed to be: 1500 105: running test bio-end:excl-3 47/187 Test #105: BioEnd-Excl-3 ..................................... Passed 0.14 sec test 106 Start 106: BioEnd-Excl-4 106: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-4" "0" "n" "-I/usr/include/ncbi-vdb" 106: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 106: Test timeout computed to be: 1500 106: running test bio-end:excl-4 48/187 Test #106: BioEnd-Excl-4 ..................................... Passed 0.14 sec test 107 Start 107: BioEnd-Incl-1 107: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "incl-1" "0" "n" "-I/usr/include/ncbi-vdb" 107: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 107: Test timeout computed to be: 1500 107: running test bio-end:incl-1 49/187 Test #107: BioEnd-Incl-1 ..................................... Passed 0.15 sec test 108 Start 108: IdxText-CI-1 108: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/usr/include/ncbi-vdb" 108: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 108: Test timeout computed to be: 1500 108: running test bio-end:excl-1 50/187 Test #108: IdxText-CI-1 ...................................... Passed 0.14 sec test 109 Start 109: idx-text-makeinputs 109: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-makeinputs 109: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 109: Test timeout computed to be: 1500 51/187 Test #109: idx-text-makeinputs ............................... Passed 0.00 sec test 110 Start 110: IdxText-ci-1 110: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-1" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 110: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 110: Test timeout computed to be: 1500 110: running test idx-text:ci-1 52/187 Test #110: IdxText-ci-1 ...................................... Passed 0.15 sec test 111 Start 111: IdxText-ci-2 111: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-2" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 111: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 111: Test timeout computed to be: 1500 111: running test idx-text:ci-2 53/187 Test #111: IdxText-ci-2 ...................................... Passed 0.14 sec test 112 Start 112: IdxText-ci-3 112: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-3" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 112: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 112: Test timeout computed to be: 1500 112: running test idx-text:ci-3 54/187 Test #112: IdxText-ci-3 ...................................... Passed 0.15 sec test 113 Start 113: IdxText-ci-4 113: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-4" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 113: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 113: Test timeout computed to be: 1500 113: running test idx-text:ci-4 55/187 Test #113: IdxText-ci-4 ...................................... Passed 0.15 sec test 114 Start 114: IdxText-ci-5 114: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-5" "0" "n" "-I/usr/include/ncbi-vdb" 114: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 114: Test timeout computed to be: 1500 114: running test idx-text:ci-5 56/187 Test #114: IdxText-ci-5 ...................................... Passed 0.11 sec test 115 Start 115: IdxText-cs-1 115: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-1" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 115: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 115: Test timeout computed to be: 1500 115: running test idx-text:cs-1 57/187 Test #115: IdxText-cs-1 ...................................... Passed 0.15 sec test 116 Start 116: IdxText-cs-2 116: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-2" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 116: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 116: Test timeout computed to be: 1500 116: running test idx-text:cs-2 58/187 Test #116: IdxText-cs-2 ...................................... Passed 0.14 sec test 117 Start 117: IdxText-cs-3 117: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-3" "0" "n" "-I/usr/include/ncbi-vdb" 117: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 117: Test timeout computed to be: 1500 117: running test idx-text:cs-3 59/187 Test #117: IdxText-cs-3 ...................................... Passed 0.10 sec test 118 Start 118: PileupStats-Version 118: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -V | grep --quiet `head -n 1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers`" 118: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 118: Test timeout computed to be: 1500 60/187 Test #118: PileupStats-Version ............................... Passed 0.01 sec test 119 Start 119: PileupStats-Help 119: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -h | grep --quiet Usage" 119: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 119: Test timeout computed to be: 1500 61/187 Test #119: PileupStats-Help .................................. Passed 0.01 sec test 120 Start 120: PileupStats-NoArgs 120: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats; if [ $? == 0 ] ; then exit 1; fi;" 120: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 120: Test timeout computed to be: 1500 120: 120: Usage: 120: pileup-stats [options] 120: 120: Options: 120: -o|--output-file file for output 120: (default pipe to stdout) 120: -r|--remote-db name of remote database to create 120: (default .pileup_stat) 120: -x|--depth-cutoff cutoff for depth <= value (default 1) 120: -e|--event-cutoff cutoff for number of events > value (default 1) 120: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 120: -a|--align-category the types of alignments to pile up: 120: { primary, secondary, all } (default primary) 120: --buffer-size bytes size of output pipe buffer - default 32K bytes 120: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 120: -h|--help output brief explanation of the program 120: -v|--verbose increase the verbosity of the program. 120: -V|--version display the version of the program then quit. 120: use multiple times for more verbosity. 120: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 120: 120: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 120: 120: /usr/bin/sh: 1: [: 3: unexpected operator 62/187 Test #120: PileupStats-NoArgs ................................ Passed 0.00 sec test 121 Start 121: PileupStats-IgnoreArgs-L 121: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -L 1; if [ $? == 0 ] ; then exit 1; fi;" 121: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 121: Test timeout computed to be: 1500 121: 121: Usage: 121: pileup-stats [options] 121: 121: Options: 121: -o|--output-file file for output 121: (default pipe to stdout) 121: -r|--remote-db name of remote database to create 121: (default .pileup_stat) 121: -x|--depth-cutoff cutoff for depth <= value (default 1) 121: -e|--event-cutoff cutoff for number of events > value (default 1) 121: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 121: -a|--align-category the types of alignments to pile up: 121: { primary, secondary, all } (default primary) 121: --buffer-size bytes size of output pipe buffer - default 32K bytes 121: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 121: -h|--help output brief explanation of the program 121: -v|--verbose increase the verbosity of the program. 121: -V|--version display the version of the program then quit. 121: use multiple times for more verbosity. 121: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 121: 121: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 121: 121: /usr/bin/sh: 1: [: 3: unexpected operator 63/187 Test #121: PileupStats-IgnoreArgs-L .......................... Passed 0.00 sec test 122 Start 122: PileupStats-IgnoreArgs-z 122: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -z ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 122: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 122: Test timeout computed to be: 1500 122: 122: Usage: 122: pileup-stats [options] 122: 122: Options: 122: -o|--output-file file for output 122: (default pipe to stdout) 122: -r|--remote-db name of remote database to create 122: (default .pileup_stat) 122: -x|--depth-cutoff cutoff for depth <= value (default 1) 122: -e|--event-cutoff cutoff for number of events > value (default 1) 122: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 122: -a|--align-category the types of alignments to pile up: 122: { primary, secondary, all } (default primary) 122: --buffer-size bytes size of output pipe buffer - default 32K bytes 122: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 122: -h|--help output brief explanation of the program 122: -v|--verbose increase the verbosity of the program. 122: -V|--version display the version of the program then quit. 122: use multiple times for more verbosity. 122: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 122: 122: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 122: 122: /usr/bin/sh: 1: [: 3: unexpected operator 64/187 Test #122: PileupStats-IgnoreArgs-z .......................... Passed 0.00 sec test 123 Start 123: PileupStats-IgnoreArgs-loglevel 123: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --log-level 1; if [ $? == 0 ] ; then exit 1; fi;" 123: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 123: Test timeout computed to be: 1500 123: 123: Usage: 123: pileup-stats [options] 123: 123: Options: 123: -o|--output-file file for output 123: (default pipe to stdout) 123: -r|--remote-db name of remote database to create 123: (default .pileup_stat) 123: -x|--depth-cutoff cutoff for depth <= value (default 1) 123: -e|--event-cutoff cutoff for number of events > value (default 1) 123: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 123: -a|--align-category the types of alignments to pile up: 123: { primary, secondary, all } (default primary) 123: --buffer-size bytes size of output pipe buffer - default 32K bytes 123: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 123: -h|--help output brief explanation of the program 123: -v|--verbose increase the verbosity of the program. 123: -V|--version display the version of the program then quit. 123: use multiple times for more verbosity. 123: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 123: 123: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 123: 123: /usr/bin/sh: 1: [: 3: unexpected operator 65/187 Test #123: PileupStats-IgnoreArgs-loglevel ................... Passed 0.00 sec test 124 Start 124: PileupStats-IgnoreArgs-xmllog 124: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 124: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 124: Test timeout computed to be: 1500 124: 124: Usage: 124: pileup-stats [options] 124: 124: Options: 124: -o|--output-file file for output 124: (default pipe to stdout) 124: -r|--remote-db name of remote database to create 124: (default .pileup_stat) 124: -x|--depth-cutoff cutoff for depth <= value (default 1) 124: -e|--event-cutoff cutoff for number of events > value (default 1) 124: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 124: -a|--align-category the types of alignments to pile up: 124: { primary, secondary, all } (default primary) 124: --buffer-size bytes size of output pipe buffer - default 32K bytes 124: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 124: -h|--help output brief explanation of the program 124: -v|--verbose increase the verbosity of the program. 124: -V|--version display the version of the program then quit. 124: use multiple times for more verbosity. 124: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 124: 124: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 124: 124: /usr/bin/sh: 1: [: 3: unexpected operator 66/187 Test #124: PileupStats-IgnoreArgs-xmllog ..................... Passed 0.00 sec test 125 Start 125: PileupStats-IgnoreArgs-xmllogfd 125: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log-fd ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 125: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 125: Test timeout computed to be: 1500 125: 125: Usage: 125: pileup-stats [options] 125: 125: Options: 125: -o|--output-file file for output 125: (default pipe to stdout) 125: -r|--remote-db name of remote database to create 125: (default .pileup_stat) 125: -x|--depth-cutoff cutoff for depth <= value (default 1) 125: -e|--event-cutoff cutoff for number of events > value (default 1) 125: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 125: -a|--align-category the types of alignments to pile up: 125: { primary, secondary, all } (default primary) 125: --buffer-size bytes size of output pipe buffer - default 32K bytes 125: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 125: -h|--help output brief explanation of the program 125: -v|--verbose increase the verbosity of the program. 125: -V|--version display the version of the program then quit. 125: use multiple times for more verbosity. 125: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 125: 125: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 125: 125: /usr/bin/sh: 1: [: 3: unexpected operator 67/187 Test #125: PileupStats-IgnoreArgs-xmllogfd ................... Passed 0.00 sec test 126 Start 126: test-vdb 126: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb 126: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb 126: Test timeout computed to be: 1500 126: Running 38 test cases... 126: Error_RcToString (0 s) 126: Error_RcToString_English (0 s) 126: Manager_Construction (0 s) 126: RC 1426393646 thrown by ./libs/inc/vdb.hpp:239 126: Manager_Schema_Bad (0 s) 126: Manager_Schema_Good (0 s) 126: Manager_Schema_Include (0 s) 126: Manager_SchemaFromFile (0 s) 126: Manager_SchemaFromFile_Bad (0 s) 126: RC 2615477144 thrown by ./libs/inc/vdb.hpp:621 126: Manager_Database_Bad (0 s) 126: Manager_OpenDatabase_Good (0 s) 126: RC 1273301772 thrown by ./libs/inc/vdb.hpp:628 126: Manager_OpenTable_Bad (0 s) 126: Manager_OpenTable_Good (0 s) 126: Manager_PathType_Table (0 s) 126: Manager_PathType_Database (0 s) 126: Manager_PathType_Invalid (0 s) 126: RC 807538648 thrown by ./libs/inc/vdb.hpp:551 126: Database_Table_Bad (0 s) 126: Database_Table_Good (0 s) 126: Database_hasTable_Yes (0 s) 126: Database_hasTable_No (0 s) 126: Table_Default (0 s) 126: Table_Assign (0 s) 126: RC 1367638680 thrown by ./libs/inc/vdb.hpp:437 126: Table_ReadCursor1_BadColumn (0 s) 126: Table_ReadCursor1 (0 s) 126: RC 1367638680 thrown by ./libs/inc/vdb.hpp:470 126: Table_ReadCursor2_BadColumn (0 s) 126: Table_ReadCursor2 (0 s) 126: Table_PhysicaColumns (0 s) 126: Cursor_Columns (0 s) 126: Cursor_RowRange (0 s) 126: Cursor_ReadOne (0 s) 126: Cursor_ReadN (0 s) 126: Cursor_ForEach (0 s) 126: Cursor_ForEachWithFilter (0 s) 126: Cursor_IsStaticColumn_True (0 s) 126: Cursor_IsStaticColumn_False (0 s) 126: RawData_asVector_badCast (0 s) 126: RawData_asVector (0 s) 126: RawData_value_badCast (0 s) 126: RawData_value (0 s) 126: 126: *** No errors detected (2 s total) 68/187 Test #126: test-vdb .......................................... Passed 2.11 sec test 127 Start 127: Test_NgsJava_lib_load 127: Test command: /usr/bin/java "-cp" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar" "-Dvdb.System.loadLibrary=1" "-Dvdb.log=FINEST" "org.junit.runner.JUnitCore" "gov.nih.nlm.ncbi.ngs.ngs_test_lib_load" 127: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java 127: Test timeout computed to be: 1500 127: JUnit version 4.11 127: ......... 127: Time: 0.054 127: 127: OK (9 tests) 127: 69/187 Test #127: Test_NgsJava_lib_load ............................. Passed 0.21 sec test 131 Start 131: Test_Align_Info 131: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info "-h" 131: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info 131: Test timeout computed to be: 1500 131: Usage: 131: align-info [options] 131: 131: Summary: 131: Print database alignment information 131: 131: Parameters: 131: db-path Path to the database 131: 131: Options: 131: -a|--all print all information 131: -r|--ref print refseq information [default] 131: -b|--bam print bam header (if present) 131: -Q|--qual print quality statistics (if present) 131: -H|--headers print headers for output blocks 131: --ngc path to ngc file 131: 131: -h|--help Output brief explanation for the program. 131: -V|--version Display the version of the program then 131: quit. 131: -L|--log-level Logging level as number or enum string. One 131: of (fatal|sys|int|err|warn|info|debug) or 131: (0-6) Current/default is warn. 131: -v|--verbose Increase the verbosity of the program 131: status messages. Use multiple times for more 131: verbosity. Negates quiet. 131: -q|--quiet Turn off all status messages for the 131: program. Negated by verbose. 131: --option-file Read more options and parameters from the 131: file. 131: 131: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info : 3.0.9 131: 70/187 Test #131: Test_Align_Info ................................... Passed 0.00 sec test 132 Start 132: Test_Drivertool_BuildVersion 132: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_BuildVersion 132: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 132: Test timeout computed to be: 1500 132: Test_Version passed. 71/187 Test #132: Test_Drivertool_BuildVersion ...................... Passed 0.00 sec test 133 Start 133: Test_Drivertool_FilePath 133: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_FilePath 133: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 133: Test timeout computed to be: 1500 133: Running 27 test cases... 133: DefaultConstruct (0 s) 133: Construct_Cstring (0 s) 133: Construct_String (0 s) 133: CopyConstruct_Empty (0 s) 133: CopyConstruct (0 s) 133: Assign_Empty (0 s) 133: Assign (0 s) 133: Copy (0 s) 133: Split (0 s) 133: BaseName (0 s) 133: Append (0 s) 133: RemoveSuffix_0 (0 s) 133: RemoveSuffix (0 s) 133: RemoveSuffix_Ext (0 s) 133: RemoveSuffix_Oversized (0 s) 133: SimpleName (0 s) 133: CWD (0 s) 133: Exists (0 s) 133: CWD_Append (0 s) 133: Exists_Static (0 s) 133: Readable (0 s) 133: IsSame_Directory (0 s) 133: NotIsSame_Directory (0 s) 133: IsSame_File (0 s) 133: NotIsSame_File (0 s) 133: Current_Executable (0 s) 133: Executable_Yes (0 s) 133: 133: *** No errors detected (0 s total) 72/187 Test #133: Test_Drivertool_FilePath .......................... Passed 0.00 sec test 134 Start 134: Test_Drivertool_CommandLine 134: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_CommandLine 134: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 134: Test timeout computed to be: 1500 134: Test_CommandLine passed. 73/187 Test #134: Test_Drivertool_CommandLine ....................... Passed 0.00 sec test 135 Start 135: Test_Drivertool_JsonParsing 135: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_JsonParsing 135: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 135: Test timeout computed to be: 1500 74/187 Test #135: Test_Drivertool_JsonParsing ....................... Passed 0.01 sec test 136 Start 136: Test_Drivertool_SDLResponse 136: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_SDLResponse 136: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 136: Test timeout computed to be: 1500 75/187 Test #136: Test_Drivertool_SDLResponse ....................... Passed 0.00 sec test 137 Start 137: Test_Drivertool_Accession 137: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_Accession 137: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 137: Test timeout computed to be: 1500 76/187 Test #137: Test_Drivertool_Accession ......................... Passed 0.00 sec test 138 Start 138: Test_Drivertool_UUID 138: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_UUID 138: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 138: Test timeout computed to be: 1500 77/187 Test #138: Test_Drivertool_UUID .............................. Passed 0.40 sec test 139 Start 139: Test_Drivertool_RunSource 139: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_RunSource 139: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 139: Test timeout computed to be: 1500 139: Running 18 test cases... 139: CopmmandLine_GetToolPath (0 s) 139: CommandLine_Defaults (0 s) 139: UnknownTool (0 s) 139: URL_parameter (0 s) 139: ConstructNoSDL (0 s) 139: ConstructSDL_false (0 s) 139: ConstructSDL_true (0 s) 139: ConstructSDL_badSDL (0 s) 139: ConstructSDL_noResults (0 s) 139: ConstructSDL_oneResult (0 s) 139: ConstructSDL_multipleFiles (0 s) 139: ConstructSDL_multipleLocations (0 s) 139: Query SRR000001: Error 400 no data 139: ConstructSDL_status_400 (0 s) 139: ConstructSDL_status_404 (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_pileupIgnored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_noObject_Ignored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_noQuality_Ignored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_Encrypted_NoNGC_Skipped (0 s) 139: 139: *** No errors detected (0 s total) 78/187 Test #139: Test_Drivertool_RunSource ......................... Passed 0.01 sec test 140 Start 140: Test_Drivertool_ToolArgs 140: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_ToolArgs 140: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 140: Test timeout computed to be: 1500 140: Running 1 test case... 140: ParseArgs (0 s) 140: 140: *** No errors detected (0 s total) 79/187 Test #140: Test_Drivertool_ToolArgs .......................... Passed 0.00 sec test 141 Start 141: Test_FasterqDump_Help 141: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump "-h" 141: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 141: Test timeout computed to be: 1500 141: 141: Usage: 141: fasterq-dump [options] 141: fasterq-dump [options] 141: 141: Options: 141: -F|--format format (special, fastq, default=fastq) 141: -o|--outfile output-file 141: -O|--outdir output-dir 141: -b|--bufsize size of file-buffer dflt=1MB 141: -c|--curcache size of cursor-cache dflt=10MB 141: -m|--mem memory limit for sorting dflt=100MB 141: -t|--temp where to put temp. files dflt=curr dir 141: -e|--threads how many thread dflt=6 141: -p|--progress show progress 141: -x|--details print details 141: -s|--split-spot split spots into reads 141: -S|--split-files write reads into different files 141: -3|--split-3 writes single reads in special file 141: --concatenate-reads writes whole spots into one file 141: -Z|--stdout print output to stdout 141: -f|--force force to overwrite existing file(s) 141: --skip-technical skip technical reads 141: --include-technical include technical reads 141: -M|--min-read-len filter by sequence-len 141: --table which seq-table to use in case of pacbio 141: -B|--bases filter by bases 141: -A|--append append to output-file 141: --fasta produce FASTA output 141: --fasta-unsorted produce FASTA output, unsorted 141: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 141: --fasta-concat-all concatenate all rows and produce FASTA 141: --internal-ref extract only internal REFERENCEs 141: --external-ref extract only external REFERENCEs 141: --ref-name extract only these REFERENCEs 141: --ref-report enumerate references 141: --use-name print name instead of seq-id 141: --seq-defline custom defline for sequence: $ac=accession, 141: $sn=spot-name, $sg=spot-group, $si=spot-id, 141: $ri=read-id, $rl=read-length 141: --qual-defline custom defline for qualities: same as 141: seq-defline 141: -U|--only-unaligned process only unaligned reads 141: -a|--only-aligned process only aligned reads 141: --disk-limit explicitly set disk-limit 141: --disk-limit-tmp explicitly set disk-limit for temp. files 141: --size-check switch to control: on=perform size-check 141: (default), off=do not perform size-check, 141: only=perform size-check only 141: --ngc PATH to ngc file 141: 141: -h|--help Output brief explanation for the program. 141: -V|--version Display the version of the program then 141: quit. 141: -L|--log-level Logging level as number or enum string. One 141: of (fatal|sys|int|err|warn|info|debug) or 141: (0-6) Current/default is warn. 141: -v|--verbose Increase the verbosity of the program 141: status messages. Use multiple times for more 141: verbosity. Negates quiet. 141: -q|--quiet Turn off all status messages for the 141: program. Negated by verbose. 141: --option-file Read more options and parameters from the 141: file. 141: for more information visit: 141: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 141: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 141: 141: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 141: 80/187 Test #141: Test_FasterqDump_Help ............................. Passed 0.00 sec test 142 Start 142: Test_FasterqDump_NotZeroWithoutParameters 142: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump 142: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 142: Test timeout computed to be: 1500 142: 142: Usage: 142: fasterq-dump [options] 142: fasterq-dump [options] 142: 142: Options: 142: -F|--format format (special, fastq, default=fastq) 142: -o|--outfile output-file 142: -O|--outdir output-dir 142: -b|--bufsize size of file-buffer dflt=1MB 142: -c|--curcache size of cursor-cache dflt=10MB 142: -m|--mem memory limit for sorting dflt=100MB 142: -t|--temp where to put temp. files dflt=curr dir 142: -e|--threads how many thread dflt=6 142: -p|--progress show progress 142: -x|--details print details 142: -s|--split-spot split spots into reads 142: -S|--split-files write reads into different files 142: -3|--split-3 writes single reads in special file 142: --concatenate-reads writes whole spots into one file 142: -Z|--stdout print output to stdout 142: -f|--force force to overwrite existing file(s) 142: --skip-technical skip technical reads 142: --include-technical include technical reads 142: -M|--min-read-len filter by sequence-len 142: --table which seq-table to use in case of pacbio 142: -B|--bases filter by bases 142: -A|--append append to output-file 142: --fasta produce FASTA output 142: --fasta-unsorted produce FASTA output, unsorted 142: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 142: --fasta-concat-all concatenate all rows and produce FASTA 142: --internal-ref extract only internal REFERENCEs 142: --external-ref extract only external REFERENCEs 142: --ref-name extract only these REFERENCEs 142: --ref-report enumerate references 142: --use-name print name instead of seq-id 142: --seq-defline custom defline for sequence: $ac=accession, 142: $sn=spot-name, $sg=spot-group, $si=spot-id, 142: $ri=read-id, $rl=read-length 142: --qual-defline custom defline for qualities: same as 142: seq-defline 142: -U|--only-unaligned process only unaligned reads 142: -a|--only-aligned process only aligned reads 142: --disk-limit explicitly set disk-limit 142: --disk-limit-tmp explicitly set disk-limit for temp. files 142: --size-check switch to control: on=perform size-check 142: (default), off=do not perform size-check, 142: only=perform size-check only 142: --ngc PATH to ngc file 142: 142: -h|--help Output brief explanation for the program. 142: -V|--version Display the version of the program then 142: quit. 142: -L|--log-level Logging level as number or enum string. One 142: of (fatal|sys|int|err|warn|info|debug) or 142: (0-6) Current/default is warn. 142: -v|--verbose Increase the verbosity of the program 142: status messages. Use multiple times for more 142: verbosity. Negates quiet. 142: -q|--quiet Turn off all status messages for the 142: program. Negated by verbose. 142: --option-file Read more options and parameters from the 142: file. 142: for more information visit: 142: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 142: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 142: 142: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 142: 81/187 Test #142: Test_FasterqDump_NotZeroWithoutParameters ......... Passed 0.00 sec test 143 Start 143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id 143: Test command: /usr/bin/bash "test_for_read_id_flat.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 143: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 143: Test timeout computed to be: 1500 143: spots read : 10 143: reads read : 20 143: reads written : 20 143: READ_ID1: 10 143: READ_ID2: 10 143: success testing read-id for --fasta-unsorted mode on flat table 82/187 Test #143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id ... Passed 0.19 sec test 144 Start 144: Test_FasterDump_Fasta_unsorted_cSRA_read_id 144: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump" "bash" "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb"' > tmp.kfg; ./test_for_read_id_cSRA.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 144: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 144: Test timeout computed to be: 1500 144: spots read : 10 144: reads read : 20 144: reads written : 20 144: READ_ID1: 10 144: READ_ID2: 10 144: success testing read-id for --fasta-unsorted mode on cSRA table 83/187 Test #144: Test_FasterDump_Fasta_unsorted_cSRA_read_id ....... Passed 0.51 sec test 145 Start 145: Test_Tiny_cSRA 145: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump" "bash" "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb"' > tmp.kfg; ./tiny_csra.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 145: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 145: Test timeout computed to be: 1500 145: 145: testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump on tiny cSRA-accession 145: spots read : 3 145: reads read : 3 145: reads written : 3 84/187 Test #145: Test_Tiny_cSRA .................................... Passed 0.84 sec test 159 Start 159: SamDumpTestSetup 159: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-sam-dump-test"' > tmp.kfg" 159: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 159: Test timeout computed to be: 1500 85/187 Test #159: SamDumpTestSetup .................................. Passed 0.00 sec test 160 Start 160: Test_sam_dump_verify_omit 160: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./verify_omit_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 160: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 160: Test timeout computed to be: 1500 86/187 Test #160: Test_sam_dump_verify_omit ......................... Passed 1.09 sec test 161 Start 161: Test_sam_dump_star_quality 161: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./print_star_on_missing_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 161: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 161: Test timeout computed to be: 1500 87/187 Test #161: Test_sam_dump_star_quality ........................ Passed 0.84 sec test 162 Start 162: Test_Srapath_Check_exit_code 162: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=../.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath" 162: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath 162: Test timeout computed to be: 1500 162: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath] 88/187 Test #162: Test_Srapath_Check_exit_code ...................... Passed 0.05 sec test 164 Start 164: Test_SraPileup_Check_exit_code 164: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup" 164: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup 164: Test timeout computed to be: 1500 164: WARNING[TEST1] help message is in 'STDOUT' 164: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup] 89/187 Test #164: Test_SraPileup_Check_exit_code .................... Passed 0.09 sec test 168 Start 168: Test_VDB_Config_model 168: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/model.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model" 168: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config 168: Test timeout computed to be: 1500 168: testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model 168: Running 11 test cases... 168: get_config_changed (0 s) 168: prefetch_download_to_cache (0 s) 168: user_accept_aws_charges (0 s) 168: user_accept_gcp_charges (0 s) 168: ./test/external/vdb-config/test-vdb-config-model.cpp:92: fatal error in "temp_cache_location": critical check string ( "path" ) == m . get_temp_cache_location() failed [path != /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/path] 168: temp_cache_location (0 s) 168: gcp_credential_file_location (0 s) 168: aws_credential_file_location (0 s) 168: aws_profile (0 s) 168: noCommit (0 s) 168: Commit (0 s) 168: Reload (0 s) 168: 168: *** 1 failure detected in test suite "VdbConfStridesModelTestSuite" 168: VDB Copy model test is finished 90/187 Test #168: Test_VDB_Config_model ............................. Passed 0.36 sec test 169 Start 169: Test_VDB_Config 169: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 169: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config 169: Test timeout computed to be: 1500 169: Testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config... 169: VDB config test is finished 91/187 Test #169: Test_VDB_Config ................................... Passed 0.17 sec test 170 Start 170: Test_Vdb_dump_Check_exit_code 170: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" 170: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump 170: Test timeout computed to be: 1500 170: WARNING[TEST1] help message is in 'STDOUT' 170: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump] 92/187 Test #170: Test_Vdb_dump_Check_exit_code ..................... Passed 0.09 sec test 171 Start 171: Test_Vdb_dump_view-spec 171: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Vdb_dump_view-spec 171: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump 171: Test timeout computed to be: 1500 171: Running 21 test cases... 171: NullSelf (0 s) 171: NullSpec (0 s) 171: EmptySpec (0 s) 171: NullError (0 s) 171: ZeroSizeError (0 s) 171: MissingLeftAngle (0 s) 171: EmptyAngles (0 s) 171: OneParam (0 s) 171: ManyParams (0 s) 171: MissingComma (0 s) 171: MissingParam (0 s) 171: ExtraChars (0 s) 171: NestedViews (0 s) 171: ViewSpecOpen_NullSelf (0 s) 171: ViewSpecOpen_NullParam_Db (0 s) 171: ViewSpecOpen_NullParam_Schema (0 s) 171: ViewSpecOpen_NullParam_View (0 s) 171: ViewSpecOpen_WrongNumberOfParams (0 s) 171: ViewSpecOpen_ParamNotTable (0 s) 171: MakeCursor (0 s) 171: NestedView (0 s) 171: 171: *** No errors detected (0 s total) 93/187 Test #171: Test_Vdb_dump_view-spec ........................... Passed 0.05 sec test 174 Start 174: Test_VdbValidate_Unit 174: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_VdbValidate_Unit 174: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate 174: Test timeout computed to be: 1500 174: Running 3 test cases... 174: is_sorted_empty (0 s) 174: is_sorted_sorted (0 s) 174: is_sorted_unsorted (0 s) 174: 174: *** No errors detected (0 s total) 94/187 Test #174: Test_VdbValidate_Unit ............................. Passed 0.00 sec test 178 Start 178: Test_Sra_Info_Help 178: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "-h" ">actual/Test_Sra_Info_Help.stdout" 178: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 178: Test timeout computed to be: 1500 178: 178: Usage: 178: sra-info [options] 178: 178: Options: 178: -P|--platform print platform(s) 178: -Q|--quality are quality scores stored or generated 178: -A|--is-aligned is data aligned 178: -C|--schema print schema version and dependencies 178: -S|--spot-layout print spot layout(s). Uses CONSENSUS table 178: if present, SEQUENCE table otherwise 178: -f|--format output format: 178: csv ..... comma separated values on one line 178: xml ..... xml-style 178: json .... json-style 178: tab ..... tab-separated values on one line 178: csv and tab formats can be used just with a single query 178: --schema does npt support csv and tab 178: -l|--limit limit output to elements, e.g. most 178: popular spot layouts; must be positive 178: -D|--detail detail level, <0> the least detailed 178: output; must be or greater 178: -R|--rows report spot layouts for the first rows 178: of the table 178: -h|--help Output brief explanation for the program. 178: -V|--version Display the version of the program then 178: quit. 178: -L|--log-level Logging level as number or enum string. One 178: of (fatal|sys|int|err|warn|info|debug) or 178: (0-6) Current/default is warn. 178: -v|--verbose Increase the verbosity of the program 178: status messages. Use multiple times for more 178: verbosity. Negates quiet. 178: -q|--quiet Turn off all status messages for the 178: program. Negated by verbose. 178: --option-file Read more options and parameters from the 178: file. 178: 178: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info : 3.0.9 178: 95/187 Test #178: Test_Sra_Info_Help ................................ Passed 0.00 sec test 179 Start 179: Test_Sra_Info_NoParam 179: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info 179: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 179: Test timeout computed to be: 1500 179: 179: Usage: 179: sra-info [options] 179: 179: 179: Use option --help for more information. 179: 96/187 Test #179: Test_Sra_Info_NoParam ............................. Passed 0.04 sec test 180 Start 180: Test_Sra_Info_MultipleParams 180: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "SRR000123" "SRR0001234" 180: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 180: Test timeout computed to be: 1500 180: 180: Usage: 180: sra-info [options] 180: 180: 180: Use option --help for more information. 180: 97/187 Test #180: Test_Sra_Info_MultipleParams ...................... Passed 0.04 sec test 181 Start 181: Test_Sra_Info_Limit_Negative 181: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "--spot-layout" "DRR032985" "--limit" "-1" 181: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 181: Test timeout computed to be: 1500 181: 181: 181: invalid value for --limit(not a positive number) 98/187 Test #181: Test_Sra_Info_Limit_Negative ...................... Passed 0.04 sec test 182 Start 182: Test_Sra_Info_Limit_Zero 182: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "--spot-layout" "DRR032985" "--limit" "0" 182: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 182: Test timeout computed to be: 1500 182: 182: 182: invalid value for --limit(not a positive number) 99/187 Test #182: Test_Sra_Info_Limit_Zero .......................... Passed 0.04 sec test 188 Start 188: Test_Sra_Info_Platform_Format_CSV 188: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv" "." "4.1" 188: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 188: Test timeout computed to be: 1500 188: running 4.1 188: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv 1>./actual/4.1/stdout 2>./actual/4.1/stderr 100/187 Test #188: Test_Sra_Info_Platform_Format_CSV ................. Passed 0.21 sec test 189 Start 189: Test_Sra_Info_Platform_Format_XML 189: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml" "." "4.2" 189: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 189: Test timeout computed to be: 1500 189: running 4.2 189: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml 1>./actual/4.2/stdout 2>./actual/4.2/stderr 101/187 Test #189: Test_Sra_Info_Platform_Format_XML ................. Passed 0.27 sec test 190 Start 190: Test_Sra_Info_Platform_Format_Json 190: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json" "." "4.3" 190: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 190: Test timeout computed to be: 1500 190: running 4.3 190: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json 1>./actual/4.3/stdout 2>./actual/4.3/stderr 102/187 Test #190: Test_Sra_Info_Platform_Format_Json ................ Passed 0.29 sec test 191 Start 191: Test_Sra_Info_Platform_Format_Tab 191: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab" "." "4.4" 191: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 191: Test timeout computed to be: 1500 191: running 4.4 191: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab 1>./actual/4.4/stdout 2>./actual/4.4/stderr 103/187 Test #191: Test_Sra_Info_Platform_Format_Tab ................. Passed 0.21 sec test 192 Start 192: Test_Sra_Info_IsAligned_No 192: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123" "." "5.1" 192: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 192: Test timeout computed to be: 1500 192: running 5.1 192: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123 1>./actual/5.1/stdout 2>./actual/5.1/stderr 104/187 Test #192: Test_Sra_Info_IsAligned_No ........................ Passed 1.14 sec test 194 Start 194: Test_Sra_Info_Quality_Physical 194: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra" "." "6.1" 194: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 194: Test timeout computed to be: 1500 194: running 6.1 194: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra 1>./actual/6.1/stdout 2>./actual/6.1/stderr 105/187 Test #194: Test_Sra_Info_Quality_Physical .................... Passed 0.16 sec test 208 Start 208: Test_Sra_Info_Schema_Default 208: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra" "." "9.0" 208: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 208: Test timeout computed to be: 1500 208: running 9.0 208: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra 1>./actual/9.0/stdout 2>./actual/9.0/stderr 106/187 Test #208: Test_Sra_Info_Schema_Default ...................... Passed 0.14 sec test 209 Start 209: Test_Sra_Info_Schema_Json 209: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson" "." "9.1" 209: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 209: Test timeout computed to be: 1500 209: running 9.1 209: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson 1>./actual/9.1/stdout 2>./actual/9.1/stderr 107/187 Test #209: Test_Sra_Info_Schema_Json ......................... Passed 0.13 sec test 210 Start 210: Test_Sra_Info_Schema_Xml 210: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml" "." "9.2" 210: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 210: Test timeout computed to be: 1500 210: running 9.2 210: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml 1>./actual/9.2/stdout 2>./actual/9.2/stderr 108/187 Test #210: Test_Sra_Info_Schema_Xml .......................... Passed 0.12 sec test 211 Start 211: Test_Sra_Info_ACPQS_Default 211: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS" "." "10.0" 211: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 211: Test timeout computed to be: 1500 211: running 10.0 211: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS 1>./actual/10.0/stdout 2>./actual/10.0/stderr 109/187 Test #211: Test_Sra_Info_ACPQS_Default ....................... Passed 0.52 sec test 212 Start 212: Test_Sra_Info_ACPQS_Json 212: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson" "." "10.1" 212: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 212: Test timeout computed to be: 1500 212: running 10.1 212: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson 1>./actual/10.1/stdout 2>./actual/10.1/stderr 110/187 Test #212: Test_Sra_Info_ACPQS_Json .......................... Passed 0.39 sec test 213 Start 213: Test_Sra_Info_ACPQS_Xml 213: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml" "." "10.2" 213: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 213: Test timeout computed to be: 1500 213: running 10.2 213: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml 1>./actual/10.2/stdout 2>./actual/10.2/stderr 111/187 Test #213: Test_Sra_Info_ACPQS_Xml ........................... Passed 0.36 sec test 214 Start 214: BamTestSetup 214: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-bamfload"' > tmp.kfg" 214: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 214: Test timeout computed to be: 1500 112/187 Test #214: BamTestSetup ...................................... Passed 0.00 sec test 215 Start 215: Test_BamLoader_1 215: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra test.sam" 215: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 215: Test timeout computed to be: 1500 113/187 Test #215: Test_BamLoader_1 .................................. Passed 0.26 sec test 216 Start 216: Test_BamLoader_MinBatchSize 216: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size 999999 test.sam" 216: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 216: Test timeout computed to be: 1500 114/187 Test #216: Test_BamLoader_MinBatchSize ....................... Passed 0.26 sec test 217 Start 217: Test_BamLoader_MinBatchSize_Bad 217: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size notanumber test.sam" 217: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 217: Test timeout computed to be: 1500 217: min-batch-size: bad value 217: Usage: 217: bam-load [options] 217: 217: Summary: 217: Load a BAM formatted data file 217: 217: Example: 217: bam-load -o /tmp/SRZ123456 -k analysis.bam.cfg 123456.bam 217: 217: 217: Use option --help for more information. 217: 217: 2025-12-24T07:58:09 bam-load.3.0.9 err: param incorrect while accessing argument list within application support module - load failed 115/187 Test #217: Test_BamLoader_MinBatchSize_Bad ................... Passed 0.03 sec test 218 Start 218: Test_BamLoader_platform 218: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_BamLoader_platform 218: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 218: Test timeout computed to be: 1500 116/187 Test #218: Test_BamLoader_platform ........................... Passed 0.00 sec test 219 Start 219: LatfTestSetup 219: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-latfload"' > tmp.kfg" 219: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 219: Test timeout computed to be: 1500 117/187 Test #219: LatfTestSetup ..................................... Passed 0.00 sec test 220 Start 220: SlowTest_FastqLoader_id2name 220: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/SlowTest_FastqLoader_id2name 220: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 220: Test timeout computed to be: 1500 220: Running 12 test cases... 220: Init_NullSelf (0 s) 220: Whack_NullSelf (0 s) 220: Init_Whack (0 s) 220: Add_NullSelf (0 s) 220: Add_NullName (0 s) 220: Get_NullSelf (0 s) 220: Get_NullRes (0 s) 220: Get_Empty (0 s) 220: Get_Found (0 s) 220: Get_NotFound (0 s) 220: AddMultiple_Get (0 s) 220: AddRealloc (0 s) 220: 220: *** No errors detected (0 s total) 118/187 Test #220: SlowTest_FastqLoader_id2name ...................... Passed 0.01 sec test 221 Start 221: Test_FastqLoader_WbFastq_dflt 221: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastq_dflt 221: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 221: Test timeout computed to be: 1500 221: Running 103 test cases... 221: EmptyFile (0 s) 221: EndLines (0 s) 221: SyntaxError1 (0 s) 221: SyntaxError2 (0 s) 221: RecoveryFromErrorAtTopLevel (0 s) 221: RecoveryFromErrorInHeader (0 s) 221: RecoveryFromErrorInRead (0 s) 221: RecoveryFromErrorInQuality (0 s) 221: ErrorLineNumber (0 s) 221: Tag1 (0 s) 221: Tag2_1 (0 s) 221: Tag2_2 (0 s) 221: Tag3 (0 s) 221: Tag4 (0 s) 221: Tag5 (0 s) 221: Tag6 (0 s) 221: Tag7 (0 s) 221: Tag8 (0 s) 221: Tag9 (0 s) 221: Tag10 (0 s) 221: Tag11 (0 s) 221: Tag12 (0 s) 221: Tag13 (0 s) 221: Tag14 (0 s) 221: Tag15 (0 s) 221: NotRejected (0 s) 221: SequenceNoAlignment (0 s) 221: TestSequenceGetReadLength (0 s) 221: TestSequenceGetReadLength_MultiLine (0 s) 221: TestSequenceGetRead (0 s) 221: TestSequenceGetRead_MultiLine (0 s) 221: TestSequenceGetRead2 (0 s) 221: TestSequenceGetRead2_StopOutOfRange (0 s) 221: TestSequenceGetRead2_StartOutOfRange (0 s) 221: TestSequenceGetRead2_MultiLine_InsideFirstLine (0 s) 221: TestSequenceGetRead2_MultiLine_InsideSecondLine (0 s) 221: TestSequenceGetRead2_MultiLine_AcrossEOL (0 s) 221: TestSequenceGetRead2_MultiLine_StopOutOfRange (0 s) 221: TestSequenceGetRead2_MultiLine_StartOutOfRange (0 s) 221: SequenceGetQuality33 (0 s) 221: SequenceGetQuality64 (0 s) 221: SequenceGetQualityLogOdds (0 s) 221: SequenceBaseSpace (0 s) 221: SequenceColorSpace (0 s) 221: SequenceGetOrientationIsReverse (0 s) 221: ReadNumber (0 s) 221: ReadNumberMissing (0 s) 221: ReadNumberDefault (0 s) 221: ReadNumberOverride (0 s) 221: RunSpotRead (0 s) 221: RunSpotRead_withTail (0 s) 221: RunSpotNothing (0 s) 221: SequenceGetSpotNameIllumina (0 s) 221: SequenceGetSpotGroupIllumina (0 s) 221: SequenceGetSpotGroupIllumina_Ignored (0 s) 221: SequenceGetSpotGroup_Empty (0 s) 221: SequenceGetSpotGroup_Zero (0 s) 221: SequenceGetSpotGroupBarcode (0 s) 221: SequenceGetSpotGroupBarcode_WithPluses (0 s) 221: SequenceGetSpotGroupUnderscore (0 s) 221: HashStyleBarcodeAndReadNumbersAndJunk (0 s) 221: SequenceWasPaired1 (0 s) 221: SequenceWasPaired2 (0 s) 221: SequenceWasPaired3 (0 s) 221: SequenceWasPaired4 (0 s) 221: SequenceWasPaired5 (0 s) 221: SequenceGetSpotNameOneLine (0 s) 221: SequenceGetNameNumeric (0 s) 221: GtStartsQualityOnly (0 s) 221: OneLineRead (0 s) 221: ForcePhredOffset (0 s) 221: IlluminaCasava_1_8 (0 s) 221: IlluminaCasava_1_8_SpotGroupNumber (0 s) 221: IlluminaCasava_1_8_SpotGroup_MoreMadness (0 s) 221: IlluminaCasava_1_8_EmptyTag (0 s) 221: Illumina_NegativeCoords (0 s) 221: Illumina_Underscore (0 s) 221: Illumina_IdentifierAtFront (0 s) 221: Illumina_SpaceAndIdentifierAtFront (0 s) 221: SRR1778155 (0 s) 221: SRA192487 (0 s) 221: NoEolAtEof (0 s) 221: GtStartsReadOnly (0 s) 221: Quality33TooLow (0 s) 221: Quality64TooLow (0 s) 221: QualityLogoddsTooLow (0 s) 221: DecimalQualityRejected (0 s) 221: PacbioRaw (0 s) 221: PacbioCcs (0 s) 221: PacbioNoReadNumbers (0 s) 221: PacbioWsCcs (0 s) 221: PacbioError (0 s) 221: NotPairedRead_Error (0 s) 221: NoFragmentInfo_Error (0 s) 221: NoColonAtTheEnd_Error (0 s) 221: MissingRead (0 s) 221: UnexpectedEOLreported (0 s) 221: AnotherUnexpectedEOLreported (0 s) 221: FastqDumpOutput (0 s) 221: Barcodes_Plus (0 s) 221: Barcodes_Underscore (0 s) 221: FastqMultiLineSequenceFasta (0 s) 221: FastqMultiLineSequenceFastq (0 s) 221: 221: *** No errors detected (0 s total) 119/187 Test #221: Test_FastqLoader_WbFastq_dflt ..................... Passed 0.21 sec test 222 Start 222: Test_FastqLoader_WbFastqParse 222: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqParse 222: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 222: Test timeout computed to be: 1500 222: Running 17 test cases... 222: EmptyInput (0 s) 222: TagLine1 (0 s) 222: SequenceQuality (0 s) 222: QualityOnly (0 s) 222: NoEOL_InQuality (0 s) 222: CRnoLF (0 s) 222: CommaSeparatedQuality3 (0 s) 222: WsBeforeEol (0 s) 222: SkipToEol (0 s) 222: InlineBaseSequence (0 s) 222: BufferBreakInTag (0 s) 222: BufferBreakInMultilineRead (0 s) 222: BufferBreakInMultilineQuality (0 s) 222: ReadNumberNotSeparated (0 s) 222: ReadNumberNotSeparated_Variation (0 s) 222: BarcodesReadNumbersJunkOhMy (0 s) 222: Aviti (0 s) 222: 222: *** No errors detected (0 s total) 120/187 Test #222: Test_FastqLoader_WbFastqParse ..................... Passed 0.01 sec test 223 Start 223: Test_FastqLoader_WbFastqLoader 223: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqLoader 223: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 223: Environment variables: 223: NCBI_SETTINGS=/ 223: VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 223: Test timeout computed to be: 1500 223: Running 14 test cases... 223: CommonWriterOneFile (0 s) 223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_Error (0 s) 223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 warn: Spot 'HWUSI-EAS499:1:3:9:1822' has already been assigned a spot id 223: CommonWriterDuplicateReadnames_Allowed (0 s) 223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_SameFragment (0 s) 223: CommonWriterDuplicateReadnames_DiffFragment (0 s) 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen with mate info, now has no mate info 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_MatedThenUnmated (0 s) 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen without mate info, now has mate info 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_UnmatedThenMated (0 s) 223: NoSpotAssemply (0 s) 223: NoSpotAssemply_case2 (0 s) 223: Interleaved_OneRead (0 s) 223: Interleaved_MultipleReads (0 s) 223: Interleaved_NoMatch (0 s) 223: Interleaved_1_longer (0 s) 223: Interleaved_2_longer (0 s) 223: 223: *** No errors detected (1 s total) 121/187 Test #223: Test_FastqLoader_WbFastqLoader .................... Passed 1.95 sec test 224 Start 224: Test_FastqLoader_1.1 224: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33" "." "1.1" "0" 224: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 224: Test timeout computed to be: 1500 224: running 1.1 224: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33 -o ./actual/1.1/obj 1>./actual/1.1/load.stdout 2>./actual/1.1/load.stderr 122/187 Test #224: Test_FastqLoader_1.1 .............................. Passed 0.61 sec test 225 Start 225: Test_FastqLoader_1.2 225: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64" "." "1.2" "0" 225: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 225: Test timeout computed to be: 1500 225: running 1.2 225: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64 -o ./actual/1.2/obj 1>./actual/1.2/load.stdout 2>./actual/1.2/load.stderr 123/187 Test #225: Test_FastqLoader_1.2 .............................. Passed 1.26 sec test 226 Start 226: Test_FastqLoader_1.3 226: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33" "." "1.3" "3" 226: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 226: Test timeout computed to be: 1500 226: running 1.3 226: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33 -o ./actual/1.3/obj 1>./actual/1.3/load.stdout 2>./actual/1.3/load.stderr 124/187 Test #226: Test_FastqLoader_1.3 .............................. Passed 0.23 sec test 227 Start 227: Test_FastqLoader_1.4 227: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS" "." "1.4" "0" 227: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 227: Test timeout computed to be: 1500 227: running 1.4 227: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS -o ./actual/1.4/obj 1>./actual/1.4/load.stdout 2>./actual/1.4/load.stderr 125/187 Test #227: Test_FastqLoader_1.4 .............................. Passed 0.42 sec test 228 Start 228: Test_FastqLoader_2.1 228: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33" "." "2.1" "0" 228: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 228: Test timeout computed to be: 1500 228: running 2.1 228: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33 -o ./actual/2.1/obj 1>./actual/2.1/load.stdout 2>./actual/2.1/load.stderr 126/187 Test #228: Test_FastqLoader_2.1 .............................. Passed 0.45 sec test 229 Start 229: Test_FastqLoader_2.5 229: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33" "." "2.5" "0" 229: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 229: Test timeout computed to be: 1500 229: running 2.5 229: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33 -o ./actual/2.5/obj 1>./actual/2.5/load.stdout 2>./actual/2.5/load.stderr 127/187 Test #229: Test_FastqLoader_2.5 .............................. Passed 0.41 sec test 230 Start 230: Test_FastqLoader_2.6 230: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33" "." "2.6" "0" 230: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 230: Test timeout computed to be: 1500 230: running 2.6 230: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33 -o ./actual/2.6/obj 1>./actual/2.6/load.stdout 2>./actual/2.6/load.stderr 128/187 Test #230: Test_FastqLoader_2.6 .............................. Passed 0.37 sec test 231 Start 231: Test_FastqLoader_2.7 231: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33" "." "2.7" "3" 231: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 231: Test timeout computed to be: 1500 231: running 2.7 231: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33 -o ./actual/2.7/obj 1>./actual/2.7/load.stdout 2>./actual/2.7/load.stderr 129/187 Test #231: Test_FastqLoader_2.7 .............................. Passed 0.21 sec test 232 Start 232: Test_FastqLoader_2.7.1 232: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates" "." "2.7.1" "0" 232: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 232: Test timeout computed to be: 1500 232: running 2.7.1 232: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates -o ./actual/2.7.1/obj 1>./actual/2.7.1/load.stdout 2>./actual/2.7.1/load.stderr 130/187 Test #232: Test_FastqLoader_2.7.1 ............................ Passed 0.37 sec test 233 Start 233: Test_FastqLoader_2.8.1 233: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33" "." "2.8.1" "0" 233: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 233: Test timeout computed to be: 1500 233: running 2.8.1 233: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33 -o ./actual/2.8.1/obj 1>./actual/2.8.1/load.stdout 2>./actual/2.8.1/load.stderr 131/187 Test #233: Test_FastqLoader_2.8.1 ............................ Passed 0.40 sec test 234 Start 234: Test_FastqLoader_2.9 234: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33" "." "2.9" "3" 234: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 234: Test timeout computed to be: 1500 234: running 2.9 234: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33 -o ./actual/2.9/obj 1>./actual/2.9/load.stdout 2>./actual/2.9/load.stderr 132/187 Test #234: Test_FastqLoader_2.9 .............................. Passed 0.19 sec test 235 Start 235: Test_FastqLoader_2.9.1 235: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33" "." "2.9.1" "3" 235: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 235: Test timeout computed to be: 1500 235: running 2.9.1 235: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33 -o ./actual/2.9.1/obj 1>./actual/2.9.1/load.stdout 2>./actual/2.9.1/load.stderr 133/187 Test #235: Test_FastqLoader_2.9.1 ............................ Passed 0.18 sec test 236 Start 236: Test_FastqLoader_3.1 236: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33" "." "3.1" "0" 236: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 236: Test timeout computed to be: 1500 236: running 3.1 236: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33 -o ./actual/3.1/obj 1>./actual/3.1/load.stdout 2>./actual/3.1/load.stderr 134/187 Test #236: Test_FastqLoader_3.1 .............................. Passed 0.42 sec test 237 Start 237: Test_FastqLoader_4.1 237: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/4.fastq --tmpfs ./actual -v -o actual/4.1.obj --quality PHRED_33 2>&1 | grep "Path for scratch files: ./actual/key2id"" 237: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 237: Test timeout computed to be: 1500 237: 2025-12-24T07:58:17 latf-load.3.0.9: Path for scratch files: ./actual/key2id.2373356.1 135/187 Test #237: Test_FastqLoader_4.1 .............................. Passed 0.20 sec test 238 Start 238: Test_FastqLoader_4.2 238: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33" "." "4.2" "0" 238: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 238: Test timeout computed to be: 1500 238: running 4.2 238: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33 -o ./actual/4.2/obj 1>./actual/4.2/load.stdout 2>./actual/4.2/load.stderr 136/187 Test #238: Test_FastqLoader_4.2 .............................. Passed 0.37 sec test 239 Start 239: Test_FastqLoader_4.3.1 239: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33" "." "4.3.1" "3" 239: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 239: Test timeout computed to be: 1500 239: running 4.3.1 239: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33 -o ./actual/4.3.1/obj 1>./actual/4.3.1/load.stdout 2>./actual/4.3.1/load.stderr 137/187 Test #239: Test_FastqLoader_4.3.1 ............................ Passed 0.05 sec test 240 Start 240: Test_FastqLoader_4.5 240: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33" "." "4.5" "3" 240: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 240: Test timeout computed to be: 1500 240: running 4.5 240: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33 -o ./actual/4.5/obj 1>./actual/4.5/load.stdout 2>./actual/4.5/load.stderr 138/187 Test #240: Test_FastqLoader_4.5 .............................. Passed 0.18 sec test 241 Start 241: Test_FastqLoader_4.5.2 241: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2" "." "4.5.2" "3" 241: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 241: Test timeout computed to be: 1500 241: running 4.5.2 241: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2 -o ./actual/4.5.2/obj 1>./actual/4.5.2/load.stdout 2>./actual/4.5.2/load.stderr 139/187 Test #241: Test_FastqLoader_4.5.2 ............................ Passed 0.18 sec test 242 Start 242: Test_FastqLoader_4.6 242: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33" "." "4.6" "0" 242: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 242: Test timeout computed to be: 1500 242: running 4.6 242: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33 -o ./actual/4.6/obj 1>./actual/4.6/load.stdout 2>./actual/4.6/load.stderr 140/187 Test #242: Test_FastqLoader_4.6 .............................. Passed 0.38 sec test 243 Start 243: Test_FastqLoader_4.6.1 243: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33" "." "4.6.1" "3" 243: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 243: Test timeout computed to be: 1500 243: running 4.6.1 243: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33 -o ./actual/4.6.1/obj 1>./actual/4.6.1/load.stdout 2>./actual/4.6.1/load.stderr 141/187 Test #243: Test_FastqLoader_4.6.1 ............................ Passed 0.05 sec test 244 Start 244: Test_FastqLoader_4.7 244: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33" "." "4.7" "3" 244: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 244: Test timeout computed to be: 1500 244: running 4.7 244: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33 -o ./actual/4.7/obj 1>./actual/4.7/load.stdout 2>./actual/4.7/load.stderr 142/187 Test #244: Test_FastqLoader_4.7 .............................. Passed 0.23 sec test 245 Start 245: Test_FastqLoader_4.8 245: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames" "." "4.8" "0" 245: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 245: Test timeout computed to be: 1500 245: running 4.8 245: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames -o ./actual/4.8/obj 1>./actual/4.8/load.stdout 2>./actual/4.8/load.stderr 143/187 Test #245: Test_FastqLoader_4.8 .............................. Passed 0.41 sec test 246 Start 246: Test_FastqLoader_5.0 246: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33" "." "5.0" "0" 246: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 246: Test timeout computed to be: 1500 246: running 5.0 246: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33 -o ./actual/5.0/obj 1>./actual/5.0/load.stdout 2>./actual/5.0/load.stderr 144/187 Test #246: Test_FastqLoader_5.0 .............................. Passed 0.37 sec test 247 Start 247: Test_FastqLoader_6.0 247: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33" "." "6.0" "0" 247: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 247: Test timeout computed to be: 1500 247: running 6.0 247: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33 -o ./actual/6.0/obj 1>./actual/6.0/load.stdout 2>./actual/6.0/load.stderr 145/187 Test #247: Test_FastqLoader_6.0 .............................. Passed 0.39 sec test 248 Start 248: Test_FastqLoader_7.1 248: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33" "." "7.1" "0" 248: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 248: Test timeout computed to be: 1500 248: running 7.1 248: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.1/obj 1>./actual/7.1/load.stdout 2>./actual/7.1/load.stderr 146/187 Test #248: Test_FastqLoader_7.1 .............................. Passed 0.37 sec test 249 Start 249: Test_FastqLoader_7.2 249: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33" "." "7.2" "0" 249: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 249: Test timeout computed to be: 1500 249: running 7.2 249: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.2/obj 1>./actual/7.2/load.stdout 2>./actual/7.2/load.stderr 147/187 Test #249: Test_FastqLoader_7.2 .............................. Passed 0.38 sec test 250 Start 250: Test_FastqLoader_7.3 250: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33" "." "7.3" "0" 250: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 250: Test timeout computed to be: 1500 250: running 7.3 250: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.3/obj 1>./actual/7.3/load.stdout 2>./actual/7.3/load.stderr 148/187 Test #250: Test_FastqLoader_7.3 .............................. Passed 0.47 sec test 251 Start 251: Test_FastqLoader_8.0 251: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33" "." "8.0" "0" 251: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 251: Test timeout computed to be: 1500 251: running 8.0 251: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33 -o ./actual/8.0/obj 1>./actual/8.0/load.stdout 2>./actual/8.0/load.stderr 149/187 Test #251: Test_FastqLoader_8.0 .............................. Passed 0.88 sec test 252 Start 252: Test_FastqLoader_8.1 252: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33" "." "8.1" "3" 252: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 252: Test timeout computed to be: 1500 252: running 8.1 252: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33 -o ./actual/8.1/obj 1>./actual/8.1/load.stdout 2>./actual/8.1/load.stderr 150/187 Test #252: Test_FastqLoader_8.1 .............................. Passed 0.19 sec test 253 Start 253: Test_FastqLoader_9.0 253: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33" "." "9.0" "0" 253: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 253: Test timeout computed to be: 1500 253: running 9.0 253: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33 -o ./actual/9.0/obj 1>./actual/9.0/load.stdout 2>./actual/9.0/load.stderr 151/187 Test #253: Test_FastqLoader_9.0 .............................. Passed 0.37 sec test 254 Start 254: Test_FastqLoader_10.0 254: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33" "." "10.0" "0" 254: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 254: Test timeout computed to be: 1500 254: running 10.0 254: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33 -o ./actual/10.0/obj 1>./actual/10.0/load.stdout 2>./actual/10.0/load.stderr 152/187 Test #254: Test_FastqLoader_10.0 ............................. Passed 0.39 sec test 255 Start 255: Test_FastqLoader_11.0 255: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33" "." "11.0" "0" 255: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 255: Test timeout computed to be: 1500 255: running 11.0 255: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33 -o ./actual/11.0/obj 1>./actual/11.0/load.stdout 2>./actual/11.0/load.stderr 153/187 Test #255: Test_FastqLoader_11.0 ............................. Passed 0.39 sec test 256 Start 256: Test_FastqLoader_11.1 256: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33" "." "11.1" "0" 256: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 256: Test timeout computed to be: 1500 256: running 11.1 256: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33 -o ./actual/11.1/obj 1>./actual/11.1/load.stdout 2>./actual/11.1/load.stderr 154/187 Test #256: Test_FastqLoader_11.1 ............................. Passed 0.37 sec test 257 Start 257: Test_FastqLoader_12.0 257: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags" "." "12.0" "0" 257: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 257: Test timeout computed to be: 1500 257: running 12.0 257: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags -o ./actual/12.0/obj 1>./actual/12.0/load.stdout 2>./actual/12.0/load.stderr 155/187 Test #257: Test_FastqLoader_12.0 ............................. Passed 0.37 sec test 258 Start 258: Test_FastqLoader_12.1 258: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33" "." "12.1" "0" 258: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 258: Test timeout computed to be: 1500 258: running 12.1 258: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33 -o ./actual/12.1/obj 1>./actual/12.1/load.stdout 2>./actual/12.1/load.stderr 156/187 Test #258: Test_FastqLoader_12.1 ............................. Passed 0.38 sec test 259 Start 259: Test_FastqLoader_12.2 259: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33" "." "12.2" "0" 259: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 259: Test timeout computed to be: 1500 259: running 12.2 259: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33 -o ./actual/12.2/obj 1>./actual/12.2/load.stdout 2>./actual/12.2/load.stderr 157/187 Test #259: Test_FastqLoader_12.2 ............................. Passed 0.41 sec test 260 Start 260: Test_FastqLoader_13.0 260: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33" "." "13.0" "0" 260: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 260: Test timeout computed to be: 1500 260: running 13.0 260: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33 -o ./actual/13.0/obj 1>./actual/13.0/load.stdout 2>./actual/13.0/load.stderr 158/187 Test #260: Test_FastqLoader_13.0 ............................. Passed 0.37 sec test 261 Start 261: Test_FastqLoader_13.1 261: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33" "." "13.1" "0" 261: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 261: Test timeout computed to be: 1500 261: running 13.1 261: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33 -o ./actual/13.1/obj 1>./actual/13.1/load.stdout 2>./actual/13.1/load.stderr 159/187 Test #261: Test_FastqLoader_13.1 ............................. Passed 0.41 sec test 262 Start 262: Test_FastqLoader_14.0 262: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33" "." "14.0" "0" 262: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 262: Test timeout computed to be: 1500 262: running 14.0 262: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33 -o ./actual/14.0/obj 1>./actual/14.0/load.stdout 2>./actual/14.0/load.stderr 160/187 Test #262: Test_FastqLoader_14.0 ............................. Passed 0.36 sec test 263 Start 263: Test_FastqLoader_15.0 263: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump -x READ_SEG" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33" "." "15.0" "0" 263: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 263: Test timeout computed to be: 1500 263: running 15.0 263: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33 -o ./actual/15.0/obj 1>./actual/15.0/load.stdout 2>./actual/15.0/load.stderr 161/187 Test #263: Test_FastqLoader_15.0 ............................. Passed 0.43 sec test 264 Start 264: Test_FastqLoader_16.0 264: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO" "." "16.0" "0" 264: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 264: Test timeout computed to be: 1500 264: running 16.0 264: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO -o ./actual/16.0/obj 1>./actual/16.0/load.stdout 2>./actual/16.0/load.stderr 162/187 Test #264: Test_FastqLoader_16.0 ............................. Passed 0.40 sec test 265 Start 265: Test_FastqLoader_16.1 265: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO" "." "16.1" "0" 265: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 265: Test timeout computed to be: 1500 265: running 16.1 265: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO -o ./actual/16.1/obj 1>./actual/16.1/load.stdout 2>./actual/16.1/load.stderr 163/187 Test #265: Test_FastqLoader_16.1 ............................. Passed 0.41 sec test 266 Start 266: Test_FastqLoader_17.0 266: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33" "." "17.0" "3" 266: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 266: Test timeout computed to be: 1500 266: running 17.0 266: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33 -o ./actual/17.0/obj 1>./actual/17.0/load.stdout 2>./actual/17.0/load.stderr 164/187 Test #266: Test_FastqLoader_17.0 ............................. Passed 0.18 sec test 267 Start 267: Test_FastqLoader_18.0 267: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33" "." "18.0" "3" 267: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 267: Test timeout computed to be: 1500 267: running 18.0 267: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33 -o ./actual/18.0/obj 1>./actual/18.0/load.stdout 2>./actual/18.0/load.stderr 165/187 Test #267: Test_FastqLoader_18.0 ............................. Passed 0.18 sec test 269 Start 269: Test_KAPP_qfile 269: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KAPP_qfile 269: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 269: Test timeout computed to be: 1500 269: start-position : 0 269: queue-size : 1024 269: block-size : 0 269: chunk-size : 1024 166/187 Test #269: Test_KAPP_qfile ................................... Passed 0.00 sec test 270 Start 270: Test_LOADERFILE 270: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADERFILE 270: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 270: Test timeout computed to be: 1500 270: Running 5 test cases... 270: KQueueFile_ReadTimeout_FGsleeps (2 s) 270: KQueueFile_ReadTimeout_BGsleeps (3 s) 270: KQueueFile_WriteTimeout (2 s) 270: KLoaderFile_eolBeforeEof (0 s) 270: KLoaderFile_noEolBeforeEof (0 s) 270: 270: *** No errors detected (7 s total) 167/187 Test #270: Test_LOADERFILE ................................... Passed 7.01 sec test 271 Start 271: Test_LOADER 271: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADER 271: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 271: Test timeout computed to be: 1500 271: Running 2 test cases... 271: LoaderMeta_Write (0 s) 271: LoaderMeta_WriteWithVersion (0 s) 271: 271: *** No errors detected (0 s total) 168/187 Test #271: Test_LOADER ....................................... Passed 0.04 sec test 272 Start 272: Test_sra_sort_meta_copy 272: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort/sra_sort_meta_copy.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 272: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort 272: Test timeout computed to be: 1500 272: Files before.xml and after.xml are identical 169/187 Test #272: Test_sra_sort_meta_copy ........................... Passed 4.85 sec test 273 Start 273: Test_Align_samextract 273: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Align_samextract 273: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align 273: Test timeout computed to be: 1500 273: Running 14 test cases... 273: Test_Qual_Decode (0 s) 273: Fast_Sequence (0 s) 273: Fast_u32toa (0 s) 273: Fast_i32toa (0 s) 273: Fast_strtoi64 (0 s) 273: Decode_Cigar (0 s) 273: Check_Cigar (0 s) 273: In_Range (0 s) 273: Is_MD5 (0 s) 273: Is_floworder (0 s) 273: header1 (0 s) 273: BAMfile (0 s) 273: Filter (0 s) 273: None of below files should hang: 273: fuzz/id000000,sig11,src000036,ophavoc,rep128 273: fuzz/id000000,src000000+000001,opsplice,rep16 273: fuzz/id000000,src000000,oparith8,pos3,val+10 273: fuzz/id000001,src000001,oparith16,pos10,val-6 273: fuzz/id000001,src000001,oparith8,pos10,val+9 273: fuzz/id000001,src000003,ophavoc,rep2 273: fuzz/id000002,src000000+000006,opsplice,rep64 273: fuzz/id000002,src000001,oparith8,pos10,val-31 273: fuzz/id000002,src000001,ophavoc,rep4 273: fuzz/id000003,src000001,ophavoc,rep2 273: fuzz/id000003,src000001,ophavoc,rep8 273: fuzz/id000003,src000007,ophavoc,rep2 273: fuzz/id000004,src000001,ophavoc,rep2 273: fuzz/id000004,src000001,ophavoc,rep32 273: fuzz/id000004,src000012,ophavoc,rep8 273: fuzz/id000005,src000001,ophavoc,rep2 273: fuzz/id000005,src000001,ophavoc,rep8 273: fuzz/id000005,src000013+000012,opsplice,rep4 273: fuzz/id000006,src000001,ophavoc,rep2 273: fuzz/id000006,src000001,ophavoc,rep4 273: fuzz/id000006,src000014,ophavoc,rep2 273: fuzz/id000007,src000002,opflip1,pos4 273: fuzz/id000007,src000023,ophavoc,rep4 273: fuzz/id000008,src000002,opflip1,pos8 273: fuzz/id000008,src000029,ophavoc,rep64 273: fuzz/id000009,src000002,opflip1,pos22 273: fuzz/id000009,src000031,ophavoc,rep2 273: fuzz/id000010,src000002,opflip1,pos25 273: fuzz/id000010,src000037+000017,opsplice,rep2 273: fuzz/id000011,src000002,opflip1,pos33 273: fuzz/id000011,src000046,ophavoc,rep2 273: fuzz/id000012,src000002,opflip4,pos20 273: fuzz/id000012,src000049,ophavoc,rep4 273: fuzz/id000013,src000002,opflip4,pos38 273: fuzz/id000013,src000048,ophavoc,rep2 273: fuzz/id000014,src000002,opflip4,pos76 273: fuzz/id000014,src000021+000026,opsplice,rep2 273: fuzz/id000015,src000002,opflip8,pos25 273: fuzz/id000015,src000056,ophavoc,rep2 273: fuzz/id000016,src000002,opint16,pos77,val-129 273: fuzz/id000016,src000002,opint8,pos14,val-1 273: fuzz/id000017,src000002,ophavoc,rep32 273: fuzz/id000017,src000002,opint16,pos77,val-129 273: fuzz/id000018,src000002,opint32,pos25,val+2147483647 273: fuzz/id000018,src000003,opint16,pos3,val-129 273: fuzz/id000019,src000002,opint32,pos33,valbe-128 273: fuzz/id000019,src000007,opflip16,pos33 273: fuzz/id000020,src000002,ophavoc,rep4 273: fuzz/id000020,src000007,opint16,pos117,val-129 273: fuzz/id000021,src000004,opint16,pos4,val+32767 273: fuzz/id000021,src000011,opflip4,pos76 273: fuzz/id000022,src000004,ophavoc,rep16 273: fuzz/id000022,src000011,opflip4,pos116 273: fuzz/id000023,src000011,opflip4,pos116 273: fuzz/id000023,src000018,opflip1,pos15 273: fuzz/id000024,src000011,opflip16,pos52 273: fuzz/id000024,src000018,opflip1,pos26 273: fuzz/id000025,src000018,opflip1,pos15 273: fuzz/id000025,src000018,opflip4,pos92 273: fuzz/id000026,src000018,opflip1,pos26 273: fuzz/id000026,src000018,opflip4,pos137 273: fuzz/id000027,src000018,opflip4,pos24 273: fuzz/id000028,src000018,opflip4,pos92 273: fuzz/id000029,src000018,opflip4,pos137 273: fuzz/id000030,src000018,opint16,pos138,val-129 273: fuzz/id000031,src000018,ophavoc,rep8 273: 273: Fuzz_Hangs (0 s) 273: 273: *** No errors detected (0 s total) 170/187 Test #273: Test_Align_samextract ............................. Passed 0.58 sec test 275 Start 275: Test_Align_Cache 275: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache/runtest.sh "/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "align-cache" 275: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache 275: Test timeout computed to be: 1500 275: testing align-cache 171/187 Test #275: Test_Align_Cache .................................. Passed 0.51 sec test 276 Start 276: Test_KFF 276: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KFF 276: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 276: Test timeout computed to be: 1500 276: Running 2 test cases... 276: ExtFileFormat (0 s) 276: MagicFileFormat (0 s) 276: 276: *** No errors detected (0 s total) 172/187 Test #276: Test_KFF .......................................... Passed 0.01 sec test 277 Start 277: Test_Copycat_Help 277: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat "-h" 277: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 277: Test timeout computed to be: 1500 277: 277: Usage: 277: copycat [options] src-file dst-file 277: copycat [options] src-file [src-file...] dst-dir 277: copycat [options] -o dst-dir src-file [src-file...] 277: 277: Summary: 277: Copies files and/or directories, creating a catalog of the copied files. 277: -x|--cache-dir location of output cached files 277: -f|--force force overwrite of existing files 277: -o|--output location of output 277: -e|--extract location of extracted files 277: -E|--extract-to-dir extracted directories match normal XML 277: -X|--xml-dir XML matches extracted files 277: --input-buffer system file reads are of blocks of this size 277: --output-buffer system file writes are of blocks of this 277: size 277: --no-bzip2 do not decompress files compressed with 277: bzip2 277: --no-md5 do not calculate md5 hashes 277: -h|--help Output brief explanation for the program. 277: -V|--version Display the version of the program then 277: quit. 277: -L|--log-level Logging level as number or enum string. One 277: of (fatal|sys|int|err|warn|info|debug) or 277: (0-6) Current/default is warn. 277: -v|--verbose Increase the verbosity of the program 277: status messages. Use multiple times for more 277: verbosity. Negates quiet. 277: -q|--quiet Turn off all status messages for the 277: program. Negated by verbose. 277: --option-file Read more options and parameters from the 277: file. 277: Use: 277: Copy and catalog: 277: Some quick examples: 277: copycat dir/file.tar other-dir/file.tar 277: copy file.tar from dir to other-dir and write the catalog to stdout 277: copycat dir/file.tar otherdir/ 277: the same 277: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw other-dir.file.tar 277: copy and decrypt file.tar.nenc from dir to other-dir and catalog 277: copycat dir/file.tar "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw 277: copy and encrypt file.tar from dir to other-dir/file.tar.nenc and catalog 277: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw1 \ 277: "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw2 277: copy the file as above while changing the encryption 277: 277: Use: 277: Copy source file[s] to a destination file or directory. 277: File names can either be typical path names or they can be URLs (IRLs) using 277: the standard "file" or extended "ncbi-file" schemes. 277: The catalog is XML output sent by default to stdout. 277: As UTF-8 is accepted in the paths they are IRLs for International Resource 277: Locators. 277: 277: If the specified destination does not exist, there could be an ambiguity 277: whether the destination is supposed to be a file or directory. If the 277: entered path ends in a '/' character or if there is more than one source 277: it is assumed to mean a directory and is created as such. If neither of 277: of those apply it is assumed to be a file. 277: 277: The sources or destination may also be special Unix devices: 277: /dev/stdin is supported as a source. 277: /dev/stdout and /dev/stderr is supported as a destination. 277: Other file descriptor devices can be used in the form: 277: /dev/fd/ 277: For example /dev/stdin is synonymous with /dev/fd/0 as a source. 277: If /dev/stdout or /dev/fd/1 is used as the destination then the XML 277: output is redirected to /dev/stderr (/dev/fd/2). 277: Device /dev/null as the destination is treated as a file with only one 277: source but as a directory if more than one source. Using this device 277: means no actual file will be copied but the cataloging will be done but 277: xml-base-node must be used. 277: 277: These special devices can be entered using the URL (IRL) schemes if 277: desired. This allows the use of 'query' decorators. 277: 277: If a query is added to the URL it will need to be enclosed within '"' 277: characters on a command line to prevent premature interpretation. 277: The query for the 'ncbi-file' extension to the 'file' scheme allows 277: encryption and decryption. The supported query is introduced by the 277: standard URI/IRI syntax of a '?' character with a '&' character 277: separating individual query-entries. 277: 277: The supported query entries are: 277: 'encrypt' or 'enc' to mean the input may be encrypted or the output 277: will be encrypted, 277: 'pwfile=' gives the path to file containing the password. 277: 'pwfd=' gives the numerical file descriptor from which to read 277: the password, 277: 277: In this program the encrypted input can apply to a file contained within 277: the source rather than just the source file itself. The tool is fully 277: compatible with all versions of NCBI encryption. 277: 277: If the output is to be encrypted only the newer FIPS compliant encryption 277: will be used and applies to the whole file. 277: 277: NOTE: Not all combinations of URL specifications will work at this point. 277: 277: NOTE: using the same file descriptor for multiple sources or overlapping with 277: stdin/stdout/stderr may cause undefined behavior including hanging the 277: the program. 277: 277: The '-x' option allows small files that are typed as eligible for 277: caching to be copied to the cache directory provided. the directory 277: will be created if necessary. 277: the intent is to capture top-level files, such that files are copied 277: into the flat cache directory without regard to where they were found 277: in the input hierarchy. in the case of name conflict, output files will 277: be renamed. 277: 277: To prevent internal decompression of bzipped files, use the option 277: '--no-bzip2' 277: 277: To prevent calculation of MD5 hashes, use the option 277: '--no-md5' 277: 277: 277: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat : 3.0.9 277: 173/187 Test #277: Test_Copycat_Help ................................. Passed 0.00 sec test 278 Start 278: Test_Copycat_Bad_Name 278: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-bad-name.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 278: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 278: Test timeout computed to be: 1500 278: testing copycat expected output for file name with % 278: copycat test file name with % succeeded 174/187 Test #278: Test_Copycat_Bad_Name ............................. Passed 0.05 sec test 279 Start 279: Test_Copycat_IdenticalCopy 279: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-copy.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 279: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 279: Test timeout computed to be: 1500 279: testing copycat copy 279: copycat copy succeeded 175/187 Test #279: Test_Copycat_IdenticalCopy ........................ Passed 0.05 sec test 280 Start 280: Test_Copycat_FastqParser 280: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-fastq.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 280: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 280: Test timeout computed to be: 1500 280: testing copycat fastq parser 280: copycat fastq parser succeeded 176/187 Test #280: Test_Copycat_FastqParser .......................... Passed 0.41 sec test 281 Start 281: Test_MakeReadFilter 281: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "/usr/bin/cmake" "-E" "env" "NCBI_SETTINGS=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/tmp.mkfg" "/usr/bin/cmake" "-E" "env" "VDB_LIBRARY_PATH=/usr/lib/x86_64-linux-gnu" "./runtest.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/usr/lib/x86_64-linux-gnu" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "" 281: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter 281: Test timeout computed to be: 1500 281: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /usr/lib/x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp 177/187 Test #281: Test_MakeReadFilter ............................... Passed 1.10 sec test 282 Start 282: Test_Read_filter_redact_Check_exit_code 282: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact" 282: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 282: Test timeout computed to be: 1500 282: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact] 178/187 Test #282: Test_Read_filter_redact_Check_exit_code ........... Passed 0.06 sec test 283 Start 283: Test_Read_filter_redact 283: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact/runtests.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "read-filter-redact" 283: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 283: Test timeout computed to be: 1500 283: Testing read-filter-redact from /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin 179/187 Test #283: Test_Read_filter_redact ........................... Passed 0.54 sec test 284 Start 284: Test_VDB_Copy_Check_exit_code 284: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy" 284: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 284: Test timeout computed to be: 1500 284: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy] 180/187 Test #284: Test_VDB_Copy_Check_exit_code ..................... Passed 0.05 sec test 286 Start 286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession 286: Test command: /usr/bin/bash "-c" "./return_code_on_error.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 286: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 286: Test timeout computed to be: 1500 286: 2025-12-24T07:58:42 vdb-copy.3.0.9 int: item not found while copying within virtual database module - the path 'NOT_EXISTING_DIR' cannot be opened as vdb-database or vdb-table 286: SUCCESS: vdb-copy returned 3 if ask to copy a none-existing object. 181/187 Test #286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession .... Passed 0.05 sec test 288 Start 288: Test_VDB_Diff_Check_exit_code 288: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff" 288: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff 288: Test timeout computed to be: 1500 288: WARNING[TEST1] help message is in 'STDOUT' 288: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff] 182/187 Test #288: Test_VDB_Diff_Check_exit_code ..................... Passed 0.04 sec test 291 Start 291: Test_qa-stat 291: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/test-tools/qa-stats/runtests.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats" 291: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/test-tools/qa-stats 291: Test timeout computed to be: 1500 291: Testing with default parameters. 291: Testing with one biological read. 291: Testing with one technical read. 291: Testing with two biological read. 291: Testing with one biological and one technical read. 291: Testing with multiple layouts. 183/187 Test #291: Test_qa-stat ...................................... Passed 2.70 sec test 292 Start 292: Test_Scripts_prepare-sra-names 292: Test command: /usr/bin/perl "test-prepare-sra-names.pl" 292: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 292: Test timeout computed to be: 1500 184/187 Test #292: Test_Scripts_prepare-sra-names .................... Passed 0.11 sec test 293 Start 293: Test_Scripts_fix-sra-names 293: Test command: /usr/bin/perl "test-fix-sra-names.pl" 293: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 293: Test timeout computed to be: 1500 185/187 Test #293: Test_Scripts_fix-sra-names ........................ Passed 0.05 sec test 294 Start 294: Test_Scripts_prepare-sra-names-py 294: Test command: /usr/bin/perl "test-prepare-sra-names-py.pl" 294: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 294: Test timeout computed to be: 1500 186/187 Test #294: Test_Scripts_prepare-sra-names-py ................. Passed 0.53 sec test 295 Start 295: Test_Scripts_fix-sra-names-py 295: Test command: /usr/bin/perl "test-fix-sra-names-py.pl" 295: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 295: Test timeout computed to be: 1500 187/187 Test #295: Test_Scripts_fix-sra-names-py ..................... Passed 0.26 sec 100% tests passed, 0 tests failed out of 187 Total Test time (real) = 69.14 sec make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake debian/rules override_dh_prep make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_prep -X debian/tmp make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_install cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/sra-sdk-3.0.9\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/default.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/certs.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/vdb-copy.kfg': No such file or directory -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ncbi-vdb/NGS.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/FragTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/AlignTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/AlignSliceTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/PileupTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/RefTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/DumpReferenceFASTA.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/expected.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/Makefile -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/README.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/arm64 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/arm64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/fat86 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/fat86/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Reference.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Fragment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Alignment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/AlignmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/FragmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Pileup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadCollection.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Read.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceSequence.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Reference.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Fragment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Alignment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReferenceIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/AlignmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/stdbool.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/FragmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Pileup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadCollection.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Read.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/defs.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadGroupItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.hpp -- Installing: 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/README.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/expected.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-examples.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/search.js -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.js -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-3.7.1.min.js -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.css -- Installing: 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-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/index-all.html -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-doc.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-src.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/AlignTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/AlignSliceTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/FragTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/PileupTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/RefTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/expected.txt -- Installing: 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Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fasterq-dump.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fasterq-dump-orig.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fasterq-dump.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump-orig.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-validate.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-validate.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-validate -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-corrupt.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-corrupt.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-corrupt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-decrypt.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-decrypt.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-decrypt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-encrypt.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-encrypt.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-encrypt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srapath -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srapath.3 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Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/var-expand.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/var-expand -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-search.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-search.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-search -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-sra.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-sra.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-sra -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview.3 -- Installing: 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-read-write-cursor -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' # build/install.sh /usr/include/ncbi-vdb/kfg/ncbi \ # /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/usr/bin \ # debian/sra-toolkit/usr/lib/x86_64-linux-gnu \ # /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/kfgsums build/install-kfg.sh default.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh certs.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy \ debian/sra-toolkit/etc/ncbi /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/kfgsums d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a*" \ usr/lib/x86_64-linux-gnu \ --override "s/libncbi-vdb3-dev/libncbi-vdb-dev/" \ debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.so Library package automatic movement utility --> libncbi-vdb-dev package exists. set -e install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.0.9 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu PKGDEV=libncbi-ngs-dev PKGSHL=libncbi-ngs3 install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a* debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/lib*c++.a*" \ usr/lib/x86_64-linux-gnu \ --movedev "debian/tmp/usr/include/*" usr/include \ --ignorelibdep \ debian/*/usr/lib/x86_64-linux-gnu/libngs-c++.so | \ tee /dev/stderr | LC_ALL=C grep '^[a-z]' | sh tee: /dev/stderr: Permission denied Error occurred, aborting make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' # upstream installs versioned *.a libs - we only want a single version for d in debian/lib*-dev/usr/lib/x86_64-linux-gnu ; do \ for slib in $d/lib*.a ; do \ mv $d/`readlink $slib` $slib ; \ mv $d/`readlink $slib` $slib ; \ done ; \ done ls -l debian/tmp/usr/bin total 66484 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 abi-dump -> abi-dump.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 abi-dump.3 -> abi-dump.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 269416 Dec 23 19:56 abi-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 abi-load -> abi-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 abi-load.3 -> abi-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 641128 Dec 23 19:56 abi-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 align-cache -> align-cache.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 align-cache.3 -> align-cache.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 249136 Dec 23 19:56 align-cache.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 align-info -> align-info.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 align-info.3 -> align-info.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 97336 Dec 23 19:56 align-info.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 bam-load -> bam-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 bam-load.3 -> bam-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 12839712 Dec 23 19:57 bam-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 cache-mgr -> cache-mgr.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 cache-mgr.3 -> cache-mgr.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 124680 Dec 23 19:56 cache-mgr.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 ccextract -> ccextract.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 ccextract.3 -> ccextract.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 272968 Dec 23 19:56 ccextract.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 cg-load -> cg-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 cg-load.3 -> cg-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 657864 Dec 23 19:56 cg-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 check-corrupt -> check-corrupt.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 check-corrupt.3 -> check-corrupt.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 240184 Dec 23 19:56 check-corrupt.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 check-redact -> check-redact.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 check-redact.3 -> check-redact.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 97824 Dec 23 19:56 check-redact.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 copycat -> copycat.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 copycat.3 -> copycat.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 484080 Dec 23 19:56 copycat.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 crc32sum -> crc32sum.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 crc32sum.3 -> crc32sum.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 79384 Dec 23 19:56 crc32sum.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 22 Dec 23 19:58 dump-blob-boundaries -> dump-blob-boundaries.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 26 Dec 23 19:58 dump-blob-boundaries.3 -> dump-blob-boundaries.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 31552 Dec 23 19:56 dump-blob-boundaries.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 fastconv -> fastconv.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fastconv.3 -> fastconv.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 5034112 Dec 23 19:57 fastconv.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fasterq-dump -> fasterq-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 907712 Dec 23 19:56 fasterq-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 fasterq-dump.3 -> fasterq-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fasterq-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 fastq-dump -> fastq-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 349584 Dec 23 19:56 fastq-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 fastq-dump.3 -> fastq-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fastq-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 fastq-load -> fastq-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 fastq-load.3 -> fastq-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 701176 Dec 23 19:56 fastq-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 general-loader -> general-loader.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 general-loader.3 -> general-loader.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 1362776 Dec 23 19:56 general-loader.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 helicos-load -> helicos-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 helicos-load.3 -> helicos-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 607320 Dec 23 19:56 helicos-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 illumina-dump -> illumina-dump.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 illumina-dump.3 -> illumina-dump.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 255528 Dec 23 19:56 illumina-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 illumina-load -> illumina-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 illumina-load.3 -> illumina-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 657584 Dec 23 19:56 illumina-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 5 Dec 23 19:58 kar -> kar.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 6 Dec 23 19:58 kar+ -> kar+.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 kar+.3 -> kar+.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 237952 Dec 23 19:56 kar+.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 kar+meta -> kar+meta.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 kar+meta.3 -> kar+meta.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 159056 Dec 23 19:56 kar+meta.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 kar.3 -> kar.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 191112 Dec 23 19:56 kar.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 kdb-index -> kdb-index.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 kdb-index.3 -> kdb-index.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 78400 Dec 23 19:56 kdb-index.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 kdbmeta -> kdbmeta.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 kdbmeta.3 -> kdbmeta.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 124344 Dec 23 19:56 kdbmeta.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 latf-load -> latf-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 latf-load.3 -> latf-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 508096 Dec 23 19:56 latf-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 make-read-filter -> make-read-filter.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 22 Dec 23 19:58 make-read-filter.3 -> make-read-filter.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 158736 Dec 23 19:56 make-read-filter.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 7 Dec 23 19:58 md5cp -> md5cp.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 md5cp.3 -> md5cp.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 89664 Dec 23 19:56 md5cp.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 meta-cmp -> meta-cmp.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 meta-cmp.3 -> meta-cmp.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 82024 Dec 23 19:56 meta-cmp.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 meta-copy -> meta-copy.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 meta-copy.3 -> meta-copy.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 81952 Dec 23 19:56 meta-copy.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 meta-repair -> meta-repair.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 meta-repair.3 -> meta-repair.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 135992 Dec 23 19:56 meta-repair.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 ngs-pileup -> ngs-pileup.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 ngs-pileup.3 -> ngs-pileup.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2547992 Dec 23 19:56 ngs-pileup.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 pacbio-correct -> pacbio-correct.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 pacbio-correct.3 -> pacbio-correct.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 76024 Dec 23 19:56 pacbio-correct.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 pacbio-load -> pacbio-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 pacbio-load.3 -> pacbio-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 476864 Dec 23 19:56 pacbio-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 pacbio-loadxml -> pacbio-loadxml.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 pacbio-loadxml.3 -> pacbio-loadxml.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 590968 Dec 23 19:56 pacbio-loadxml.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 pileup-stats -> pileup-stats.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 pileup-stats.3 -> pileup-stats.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2779880 Dec 23 19:56 pileup-stats.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 prefetch -> prefetch.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 466784 Dec 23 19:56 prefetch-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 prefetch.3 -> prefetch.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 prefetch.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 rcexplain -> rcexplain.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 rcexplain.3 -> rcexplain.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 67456 Dec 23 19:56 rcexplain.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 read-filter-redact -> read-filter-redact.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 24 Dec 23 19:58 read-filter-redact.3 -> read-filter-redact.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 111192 Dec 23 19:56 read-filter-redact.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 ref-variation -> ref-variation.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 ref-variation.3 -> ref-variation.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2921088 Dec 23 19:56 ref-variation.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 rowwritetest -> rowwritetest.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 rowwritetest.3 -> rowwritetest.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 88584 Dec 23 19:56 rowwritetest.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sam-dump -> sam-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 834504 Dec 23 19:56 sam-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sam-dump.3 -> sam-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sam-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 samview -> samview.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 samview-util -> samview-util.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 samview-util.3 -> samview-util.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 64128 Dec 23 19:56 samview-util.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 samview.3 -> samview.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 305680 Dec 23 19:56 samview.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 schema-replace -> schema-replace.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 schema-replace.3 -> schema-replace.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 82928 Dec 23 19:56 schema-replace.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sff-dump -> sff-dump.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sff-dump.3 -> sff-dump.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 234424 Dec 23 19:56 sff-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sff-load -> sff-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sff-load.3 -> sff-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 652080 Dec 23 19:56 sff-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sortreadtest -> sortreadtest.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 sortreadtest.3 -> sortreadtest.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 79784 Dec 23 19:56 sortreadtest.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-info -> sra-info.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-info.3 -> sra-info.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2263624 Dec 23 19:56 sra-info.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 sra-pileup -> sra-pileup.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 443728 Dec 23 19:56 sra-pileup-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 sra-pileup.3 -> sra-pileup.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-pileup.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 sra-search -> sra-search.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 sra-search.3 -> sra-search.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 3981768 Dec 23 19:56 sra-search.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-sort -> sra-sort.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 sra-sort-cg -> sra-sort-cg.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 sra-sort-cg.3 -> sra-sort-cg.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 808808 Dec 23 19:56 sra-sort-cg.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-sort.3 -> sra-sort.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 808840 Dec 23 19:56 sra-sort.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-stat -> sra-stat.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-stat.3 -> sra-stat.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 338192 Dec 23 19:56 sra-stat.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 srapath -> srapath.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 256120 Dec 23 19:56 srapath-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 srapath.3 -> srapath.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 srapath.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sratools -> sratools.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sratools.3 -> sratools.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 5131504 Dec 23 19:56 sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 srf-load -> srf-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 srf-load.3 -> srf-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 833144 Dec 23 19:56 srf-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 test-download -> test-download.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 test-download.3 -> test-download.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 93648 Dec 23 19:56 test-download.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 24 Dec 23 19:58 test-read-write-cursor -> test-read-write-cursor.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 28 Dec 23 19:58 test-read-write-cursor.3 -> test-read-write-cursor.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 75488 Dec 23 19:56 test-read-write-cursor.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 test-sra -> test-sra.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 test-sra.3 -> test-sra.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 343504 Dec 23 19:56 test-sra.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 8 Dec 23 19:58 testld -> testld.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 testld.3 -> testld.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 76472 Dec 23 19:56 testld.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 txt2kdb -> txt2kdb.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 txt2kdb.3 -> txt2kdb.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 83256 Dec 23 19:56 txt2kdb.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 var-expand -> var-expand.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 var-expand.3 -> var-expand.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 1994376 Dec 23 19:56 var-expand.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 vdb-config -> vdb-config.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 vdb-config.3 -> vdb-config.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2899248 Dec 23 19:56 vdb-config.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-copy -> vdb-copy.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-copy.3 -> vdb-copy.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 329672 Dec 23 19:56 vdb-copy.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-decrypt -> vdb-decrypt.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 vdb-decrypt.3 -> vdb-decrypt.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 121584 Dec 23 19:56 vdb-decrypt.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-diff -> vdb-diff.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-diff.3 -> vdb-diff.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 155224 Dec 23 19:56 vdb-diff.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-dump -> vdb-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 897936 Dec 23 19:56 vdb-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-dump.3 -> vdb-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-encrypt -> vdb-encrypt.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 vdb-encrypt.3 -> vdb-encrypt.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 119952 Dec 23 19:56 vdb-encrypt.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-lock -> vdb-lock.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-lock.3 -> vdb-lock.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 68336 Dec 23 19:56 vdb-lock.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 vdb-sql -> vdb-sql.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-sql.3 -> vdb-sql.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 5287424 Dec 23 19:57 vdb-sql.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 vdb-unlock -> vdb-unlock.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 vdb-unlock.3 -> vdb-unlock.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 68344 Dec 23 19:56 vdb-unlock.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-validate -> vdb-validate.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 vdb-validate.3 -> vdb-validate.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 259912 Dec 23 19:56 vdb-validate.3.0.9 cd debian/tmp/usr/bin && \ for bin in *-orig.* ; do \ base=${bin%-orig.*} && \ vbase=$(readlink "$(readlink $base)") && \ vdriver=$(readlink "$vbase") && \ mv -v $bin $base-orig && \ ln -snfv ${vdriver%%.[0-9]*} $vbase || exit $? ; \ done && \ for bin in *[a-z+] ; do \ bin2=$(readlink $bin) ; \ bin3=$(readlink "$bin2") ; \ case $bin2 in \ $bin.* ) rm -v $bin2 && mv -v $bin3 $bin || exit $? ;; \ esac ; \ done renamed 'fasterq-dump-orig.3.0.9' -> 'fasterq-dump-orig' 'fasterq-dump.3.0.9' -> 'sratools' renamed 'fastq-dump-orig.3.0.9' -> 'fastq-dump-orig' 'fastq-dump.3.0.9' -> 'sratools' renamed 'prefetch-orig.3.0.9' -> 'prefetch-orig' 'prefetch.3.0.9' -> 'sratools' renamed 'sam-dump-orig.3.0.9' -> 'sam-dump-orig' 'sam-dump.3.0.9' -> 'sratools' renamed 'sra-pileup-orig.3.0.9' -> 'sra-pileup-orig' 'sra-pileup.3.0.9' -> 'sratools' renamed 'srapath-orig.3.0.9' -> 'srapath-orig' 'srapath.3.0.9' -> 'sratools' renamed 'vdb-dump-orig.3.0.9' -> 'vdb-dump-orig' 'vdb-dump.3.0.9' -> 'sratools' removed 'abi-dump.3' renamed 'abi-dump.3.0.9' -> 'abi-dump' removed 'abi-load.3' renamed 'abi-load.3.0.9' -> 'abi-load' removed 'align-cache.3' renamed 'align-cache.3.0.9' -> 'align-cache' removed 'align-info.3' renamed 'align-info.3.0.9' -> 'align-info' removed 'bam-load.3' renamed 'bam-load.3.0.9' -> 'bam-load' removed 'cache-mgr.3' renamed 'cache-mgr.3.0.9' -> 'cache-mgr' removed 'ccextract.3' renamed 'ccextract.3.0.9' -> 'ccextract' removed 'cg-load.3' renamed 'cg-load.3.0.9' -> 'cg-load' removed 'check-corrupt.3' renamed 'check-corrupt.3.0.9' -> 'check-corrupt' removed 'check-redact.3' renamed 'check-redact.3.0.9' -> 'check-redact' removed 'copycat.3' renamed 'copycat.3.0.9' -> 'copycat' removed 'crc32sum.3' renamed 'crc32sum.3.0.9' -> 'crc32sum' removed 'dump-blob-boundaries.3' renamed 'dump-blob-boundaries.3.0.9' -> 'dump-blob-boundaries' removed 'fastconv.3' renamed 'fastconv.3.0.9' -> 'fastconv' removed 'fasterq-dump.3' renamed 'fasterq-dump.3.0.9' -> 'fasterq-dump' removed 'fastq-dump.3' renamed 'fastq-dump.3.0.9' -> 'fastq-dump' removed 'fastq-load.3' renamed 'fastq-load.3.0.9' -> 'fastq-load' removed 'general-loader.3' renamed 'general-loader.3.0.9' -> 'general-loader' removed 'helicos-load.3' renamed 'helicos-load.3.0.9' -> 'helicos-load' removed 'illumina-dump.3' renamed 'illumina-dump.3.0.9' -> 'illumina-dump' removed 'illumina-load.3' renamed 'illumina-load.3.0.9' -> 'illumina-load' removed 'kar.3' renamed 'kar.3.0.9' -> 'kar' removed 'kar+.3' renamed 'kar+.3.0.9' -> 'kar+' removed 'kar+meta.3' renamed 'kar+meta.3.0.9' -> 'kar+meta' removed 'kdb-index.3' renamed 'kdb-index.3.0.9' -> 'kdb-index' removed 'kdbmeta.3' renamed 'kdbmeta.3.0.9' -> 'kdbmeta' removed 'latf-load.3' renamed 'latf-load.3.0.9' -> 'latf-load' removed 'make-read-filter.3' renamed 'make-read-filter.3.0.9' -> 'make-read-filter' removed 'md5cp.3' renamed 'md5cp.3.0.9' -> 'md5cp' removed 'meta-cmp.3' renamed 'meta-cmp.3.0.9' -> 'meta-cmp' removed 'meta-copy.3' renamed 'meta-copy.3.0.9' -> 'meta-copy' removed 'meta-repair.3' renamed 'meta-repair.3.0.9' -> 'meta-repair' removed 'ngs-pileup.3' renamed 'ngs-pileup.3.0.9' -> 'ngs-pileup' removed 'pacbio-correct.3' renamed 'pacbio-correct.3.0.9' -> 'pacbio-correct' removed 'pacbio-load.3' renamed 'pacbio-load.3.0.9' -> 'pacbio-load' removed 'pacbio-loadxml.3' renamed 'pacbio-loadxml.3.0.9' -> 'pacbio-loadxml' removed 'pileup-stats.3' renamed 'pileup-stats.3.0.9' -> 'pileup-stats' removed 'prefetch.3' renamed 'prefetch.3.0.9' -> 'prefetch' removed 'rcexplain.3' renamed 'rcexplain.3.0.9' -> 'rcexplain' removed 'read-filter-redact.3' renamed 'read-filter-redact.3.0.9' -> 'read-filter-redact' removed 'ref-variation.3' renamed 'ref-variation.3.0.9' -> 'ref-variation' removed 'rowwritetest.3' renamed 'rowwritetest.3.0.9' -> 'rowwritetest' removed 'sam-dump.3' renamed 'sam-dump.3.0.9' -> 'sam-dump' removed 'samview.3' renamed 'samview.3.0.9' -> 'samview' removed 'samview-util.3' renamed 'samview-util.3.0.9' -> 'samview-util' removed 'schema-replace.3' renamed 'schema-replace.3.0.9' -> 'schema-replace' removed 'sff-dump.3' renamed 'sff-dump.3.0.9' -> 'sff-dump' removed 'sff-load.3' renamed 'sff-load.3.0.9' -> 'sff-load' removed 'sortreadtest.3' renamed 'sortreadtest.3.0.9' -> 'sortreadtest' removed 'sra-info.3' renamed 'sra-info.3.0.9' -> 'sra-info' removed 'sra-pileup.3' renamed 'sra-pileup.3.0.9' -> 'sra-pileup' removed 'sra-search.3' renamed 'sra-search.3.0.9' -> 'sra-search' removed 'sra-sort.3' renamed 'sra-sort.3.0.9' -> 'sra-sort' removed 'sra-sort-cg.3' renamed 'sra-sort-cg.3.0.9' -> 'sra-sort-cg' removed 'sra-stat.3' renamed 'sra-stat.3.0.9' -> 'sra-stat' removed 'srapath.3' renamed 'srapath.3.0.9' -> 'srapath' removed 'sratools.3' renamed 'sratools.3.0.9' -> 'sratools' removed 'srf-load.3' renamed 'srf-load.3.0.9' -> 'srf-load' removed 'test-download.3' renamed 'test-download.3.0.9' -> 'test-download' removed 'test-read-write-cursor.3' renamed 'test-read-write-cursor.3.0.9' -> 'test-read-write-cursor' removed 'test-sra.3' renamed 'test-sra.3.0.9' -> 'test-sra' removed 'testld.3' renamed 'testld.3.0.9' -> 'testld' removed 'txt2kdb.3' renamed 'txt2kdb.3.0.9' -> 'txt2kdb' removed 'var-expand.3' renamed 'var-expand.3.0.9' -> 'var-expand' removed 'vdb-config.3' renamed 'vdb-config.3.0.9' -> 'vdb-config' removed 'vdb-copy.3' renamed 'vdb-copy.3.0.9' -> 'vdb-copy' removed 'vdb-decrypt.3' renamed 'vdb-decrypt.3.0.9' -> 'vdb-decrypt' removed 'vdb-diff.3' renamed 'vdb-diff.3.0.9' -> 'vdb-diff' removed 'vdb-dump.3' renamed 'vdb-dump.3.0.9' -> 'vdb-dump' removed 'vdb-encrypt.3' renamed 'vdb-encrypt.3.0.9' -> 'vdb-encrypt' removed 'vdb-lock.3' renamed 'vdb-lock.3.0.9' -> 'vdb-lock' removed 'vdb-sql.3' renamed 'vdb-sql.3.0.9' -> 'vdb-sql' removed 'vdb-unlock.3' renamed 'vdb-unlock.3.0.9' -> 'vdb-unlock' removed 'vdb-validate.3' renamed 'vdb-validate.3.0.9' -> 'vdb-validate' mkdir debian/tmp/usr/lib/sra-toolkit mv debian/tmp/usr/bin/sratools debian/tmp/usr/lib/sra-toolkit for x in debian/tmp/usr/bin/*-orig; do \ mv -v $x debian/tmp/usr/lib/sra-toolkit ; \ ln -snfv ../lib/sra-toolkit/sratools ${x%-orig} ; \ done renamed 'debian/tmp/usr/bin/fasterq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fasterq-dump-orig' 'debian/tmp/usr/bin/fasterq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/fastq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fastq-dump-orig' 'debian/tmp/usr/bin/fastq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/prefetch-orig' -> 'debian/tmp/usr/lib/sra-toolkit/prefetch-orig' 'debian/tmp/usr/bin/prefetch' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sam-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sam-dump-orig' 'debian/tmp/usr/bin/sam-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sra-pileup-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sra-pileup-orig' 'debian/tmp/usr/bin/sra-pileup' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/srapath-orig' -> 'debian/tmp/usr/lib/sra-toolkit/srapath-orig' 'debian/tmp/usr/bin/srapath' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/vdb-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/vdb-dump-orig' 'debian/tmp/usr/bin/vdb-dump' -> '../lib/sra-toolkit/sratools' dh_install # remove susipcious file which is not executable and conflicts with package magic rm -f debian/*/usr/bin/magic # Formally supply a standard installation ID to satisfy sratools echo '/LIBS/GUID = "806b5c3b-0088-4732-8359-51630950d723"' >debian/sra-toolkit/etc/ncbi/debian.kfg set -e && for i in 3.13 3.12; do \ cd ngs/ngs-python; \ python$i ./setup.py install --install-layout=deb \ --root /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/python3-ngs; \ cd ../..; \ done /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' find debian -name "*.pyc" -delete find debian -type d -name __pycache__ | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_installexamples find debian/*/ -name .gitignore -delete make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_python3 -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake debian/rules execute_before_dh_link make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' # Putting the upstream version number (without the dfsg part) at the end of # symlink source in the -jni package. sed -e 's/\(#STRIPPED_UPSTREAM_VERSION#\)/\13.0.9+dfsg/' \ -e 's/#STRIPPED_UPSTREAM_VERSION#\(.*\)+dfsg[0-9]*/\1/' \ -e 's/\$[({]DEB_HOST_MULTIARCH[)}]/x86_64-linux-gnu/g' \ debian/libngs-jni.links.in > debian/libngs-jni.links make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake jh_manifest -O--buildsystem=cmake Duplicate specification "V:s" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake mh_installpoms -O--buildsystem=cmake mh_linkjars --skip-clean-poms -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: symbol VDatabaseRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KNamelistCount used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VDatabaseOpenTableRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VSchemaRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcCursorCreateFailed used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcSecondaryAlignmentMissingPrimary used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcTypeIncorrect used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KClientHttpResultRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KClientHttpRequestRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VCursorGetBlob used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: 133 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dpkg-gencontrol: warning: Depends field of package libngs-jni: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package libncbi-ngs-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3' in '../libngs-c++3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'sra-toolkit' in '../sra-toolkit_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3-dbgsym' in '../libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3' in '../libncbi-ngs3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++-dev' in '../libngs-c++-dev_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3-dbgsym' in '../libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs-dev' in '../libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java' in '../libngs-java_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-jni' in '../libngs-jni_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java-doc' in '../libngs-java-doc_3.0.9+dfsg-7_all.deb'. dpkg-deb: building package 'python3-ngs' in '../python3-ngs_3.0.9+dfsg-7_all.deb'. dpkg-genbuildinfo --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.buildinfo dpkg-genchanges --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2302652 and its subdirectories I: Current time: Tue Dec 23 19:59:25 -12 2025 I: pbuilder-time-stamp: 1766563165 Wed Dec 24 07:59:25 UTC 2025 I: Signing ./b1/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo as sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc Wed Dec 24 07:59:25 UTC 2025 I: Signed ./b1/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo as ./b1/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc Wed Dec 24 07:59:25 UTC 2025 - build #1 for sra-sdk/unstable/amd64 on ionos5-amd64 done. Starting cleanup. All cleanup done. Wed Dec 24 07:59:25 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-WoHG951t, removing. /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0: total 16 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 01:36 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 01:29 b2 -rw------- 1 jenkins jenkins 4074 Nov 21 01:29 rbuildlog.zSOIPX1 -rw-r--r-- 1 jenkins jenkins 2947 Oct 18 03:27 sra-sdk_3.0.9+dfsg-7.dsc /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1: total 31040 -rw-r--r-- 1 jenkins jenkins 1792125 Nov 21 01:36 build.log -rw-r--r-- 1 jenkins jenkins 173900 Nov 21 01:36 libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 711876 Nov 21 01:36 libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 156212 Nov 21 01:36 libncbi-ngs3_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 187360 Nov 21 01:36 libngs-c++-dev_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 525072 Nov 21 01:36 libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 130764 Nov 21 01:36 libngs-c++3_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 107396 Nov 21 01:36 libngs-java-doc_3.0.9+dfsg-7_all.deb -rw-r--r-- 1 jenkins jenkins 111784 Nov 21 01:36 libngs-java_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 25556 Nov 21 01:36 libngs-jni_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 44448 Nov 21 01:36 python3-ngs_3.0.9+dfsg-7_all.deb -rw-r--r-- 1 jenkins jenkins 3791952 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2947 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7.dsc -rw-r--r-- 1 jenkins jenkins 18694 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 19576 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 5254 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_amd64.changes -rw-r--r-- 1 jenkins jenkins 1408 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_source.changes -rw-r--r-- 1 jenkins jenkins 17422852 Nov 21 01:36 sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 6519580 Nov 21 01:36 sra-toolkit_3.0.9+dfsg-7_amd64.deb /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2: total 0 Thu Nov 21 01:36:26 UTC 2024 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Dec 23 19:52:30 -12 2025 I: pbuilder-time-stamp: 1766562750 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [sra-sdk_3.0.9+dfsg-7.dsc] I: copying [./sra-sdk_3.0.9+dfsg.orig.tar.xz] I: copying [./sra-sdk_3.0.9+dfsg-7.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Oct 18 03:18:02 2024 gpgv: using RSA key 7C3AB9CFD230BD30DD009C591E7091B1F14A64A2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./sra-sdk_3.0.9+dfsg-7.dsc: no acceptable signature found dpkg-source: info: extracting sra-sdk in sra-sdk-3.0.9+dfsg dpkg-source: info: unpacking sra-sdk_3.0.9+dfsg.orig.tar.xz dpkg-source: info: unpacking sra-sdk_3.0.9+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying set_explicit_path_to_schemata.patch dpkg-source: info: applying python3 dpkg-source: info: applying skip_test_using_lots_of_memory.patch dpkg-source: info: applying find_ncbi-vdb-interfaces.patch dpkg-source: info: applying link_vdb_dynamically.patch dpkg-source: info: applying use_debian_packaged_re2.patch dpkg-source: info: applying use_debian_packaged_compression_libs.patch dpkg-source: info: applying use_soversions.patch dpkg-source: info: applying label_online_tests.patch dpkg-source: info: applying prefer_dynamic_libraries.patch dpkg-source: info: applying fix_ngs-c++-underlinkage.patch dpkg-source: info: applying use_c_locale_for_comma.patch dpkg-source: info: applying no_sse4.2.patch dpkg-source: info: applying fix_arm64_build.patch dpkg-source: info: applying support_libre2-11.patch dpkg-source: info: applying missing_include.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/2302652/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='4ec4726b81d146aeacd3e9fe810a50df' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='2302652' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_0dm2 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1 --logfile b1/build.log sra-sdk_3.0.9+dfsg-7.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/2302652/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, javahelper, libabsl-dev, libncbi-vdb-dev (>= 3.0.9+dfsg~), libfuse-dev, libhdf5-dev, libmagic-dev, libre2-dev, libxml2-dev, libzstd-dev, liblzma-dev, libsam-extract-dev, maven-repo-helper, python3-all, default-jdk, flex, bison dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libabsl-dev; however: Package libabsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libncbi-vdb-dev (>= 3.0.9+dfsg~); however: Package libncbi-vdb-dev is not installed. pbuilder-satisfydepends-dummy depends on libfuse-dev; however: Package libfuse-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libmagic-dev; however: Package libmagic-dev is not installed. pbuilder-satisfydepends-dummy depends on libre2-dev; however: Package libre2-dev is not installed. pbuilder-satisfydepends-dummy depends on libxml2-dev; however: Package libxml2-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev; however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on libsam-extract-dev; however: Package libsam-extract-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-repo-helper; however: Package maven-repo-helper is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on flex; however: Package flex is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bison{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} comerr-dev{a} d-shlibs{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} fastjar{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} groff-base{a} gtk-update-icon-cache{a} hdf5-helpers{a} hicolor-icon-theme{a} icu-devtools{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} krb5-multidev{a} libabsl-dev{a} libabsl20230802{a} libaec-dev{a} libaec0{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-radeon1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} libevent-2.1-7t64{a} libexpat1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libfuse-dev{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz0b{a} libhdf5-103-1t64{a} libhdf5-cpp-103-1t64{a} libhdf5-dev{a} libhdf5-fortran-102t64{a} libhdf5-hl-100t64{a} libhdf5-hl-cpp-100t64{a} libhdf5-hl-fortran-100t64{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libicu-dev{a} libicu72{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-2.5-0{a} libldap-dev{a} liblerc4{a} libllvm19{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-dev{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmoo-perl{a} libncbi-vdb-dev{a} libncbi-vdb3{a} libncbi-wvdb-dev{a} libncbi-wvdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnpth0t64{a} libnsl2{a} libnspr4{a} libnss3{a} libp11-kit-dev{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libre2-11{a} libre2-dev{a} libreadline8t64{a} librhash1{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsam-extract-dev{a} libsam-extract3{a} libsasl2-2{a} libsasl2-modules-db{a} libselinux1-dev{a} libsensors-config{a} libsensors5{a} libsepol-dev{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsystemd-shared{a} libsz2{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} liburi-perl{a} libuv1t64{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml2{a} libxml2-dev{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} tzdata{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core bzip2-doc chrony curl debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra gnupg-utils gpg-wks-client krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libfl-dev libgdk-pixbuf2.0-bin libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgmock-dev libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev licensecheck lintian linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd unzip wget xdg-user-dirs 0 packages upgraded, 353 newly installed, 0 to remove and 0 not upgraded. Need to get 306 MB of archives. After unpacking 1030 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libapparmor1 amd64 3.1.7-1+b3 [42.1 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libsystemd-shared amd64 257~rc2-3 [2133 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 systemd amd64 257~rc2-3 [3603 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 systemd-sysv amd64 257~rc2-3 [59.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libdbus-1-3 amd64 1.14.10-6 [203 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 dbus-bin amd64 1.14.10-6 [106 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 dbus-session-bus-common all 1.14.10-6 [79.2 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 dbus-daemon amd64 1.14.10-6 [185 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 dbus-system-bus-common all 1.14.10-6 [80.2 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 dbus amd64 1.14.10-6 [98.5 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 flex amd64 2.6.4-8.2+b3 [423 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.0-2 [856 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.0-2 [2038 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libpam-systemd amd64 257~rc2-3 [291 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b1 [759 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1+b1 [141 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 gtk-update-icon-cache amd64 4.16.5+ds-2 [50.3 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 adwaita-icon-theme all 47.0-2 [463 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 at-spi2-common all 2.54.0-1 [170 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 bison amd64 2:3.8.2+dfsg-1+b2 [1170 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.0-1 [2265 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-7 [148 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.0-1 [11.9 MB] Get: 92 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.1-1+b1 [54.8 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 d-shlibs all 0.107 [11.0 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 dbus-user-session amd64 1.14.10-6 [79.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libdconf1 amd64 0.40.0-4+b3 [41.9 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 dconf-service amd64 0.40.0-4+b3 [32.6 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 dconf-gsettings-backend amd64 0.40.0-4+b3 [28.8 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 105 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 java-common all 0.76 [6776 B] Get: 112 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libnss3 amd64 2:3.106-1 [1392 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libpcsclite1 amd64 2.3.0-3 [55.8 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre-headless amd64 21.0.5+11-1 [41.8 MB] Get: 117 http://deb.debian.org/debian unstable/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 118 http://deb.debian.org/debian unstable/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [51.2 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [76.4 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [67.6 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 136 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 libcairo-gobject2 amd64 1.18.2-2 [130 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 libcloudproviders0 amd64 0.3.6-1+b1 [29.2 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 libcolord2 amd64 1.4.7-1+b2 [140 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 libavahi-common-data amd64 0.8-13+b3 [112 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 libavahi-common3 amd64 0.8-13+b3 [43.2 kB] Get: 143 http://deb.debian.org/debian unstable/main amd64 libavahi-client3 amd64 0.8-13+b3 [47.5 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 libcups2t64 amd64 2.4.10-2 [251 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 147 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get: 150 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [223 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [54.2 kB] Get: 155 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [35.2 kB] Get: 156 http://deb.debian.org/debian unstable/main amd64 libwayland-client0 amd64 1.23.0-1+b1 [26.6 kB] Get: 157 http://deb.debian.org/debian unstable/main amd64 libwayland-cursor0 amd64 1.23.0-1+b1 [11.7 kB] Get: 158 http://deb.debian.org/debian unstable/main amd64 libwayland-egl1 amd64 1.23.0-1+b1 [5664 B] Get: 159 http://deb.debian.org/debian unstable/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 160 http://deb.debian.org/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b2 [20.3 kB] Get: 161 http://deb.debian.org/debian unstable/main amd64 libxcursor1 amd64 1:1.2.2-1+b1 [37.6 kB] Get: 162 http://deb.debian.org/debian unstable/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 163 http://deb.debian.org/debian unstable/main amd64 libxinerama1 amd64 2:1.1.4-3+b2 [16.0 kB] Get: 164 http://deb.debian.org/debian unstable/main amd64 xkb-data all 2.42-1 [790 kB] Get: 165 http://deb.debian.org/debian unstable/main amd64 libxkbcommon0 amd64 1.7.0-1 [113 kB] Get: 166 http://deb.debian.org/debian unstable/main amd64 libxrandr2 amd64 2:1.5.4-1+b1 [36.3 kB] Get: 167 http://deb.debian.org/debian unstable/main amd64 libgtk-3-common all 3.24.43-4 [4657 kB] Get: 168 http://deb.debian.org/debian unstable/main amd64 libgtk-3-0t64 amd64 3.24.43-4 [2754 kB] Get: 169 http://deb.debian.org/debian unstable/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 170 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get: 171 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get: 172 http://deb.debian.org/debian unstable/main amd64 libglapi-mesa amd64 24.2.7-1 [37.9 kB] Get: 173 http://deb.debian.org/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [241 kB] Get: 174 http://deb.debian.org/debian unstable/main amd64 libxcb-dri2-0 amd64 1.17.0-2+b1 [107 kB] Get: 175 http://deb.debian.org/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 176 http://deb.debian.org/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 177 http://deb.debian.org/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 178 http://deb.debian.org/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 179 http://deb.debian.org/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 180 http://deb.debian.org/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 181 http://deb.debian.org/debian unstable/main amd64 libxshmfence1 amd64 1.3-1+b2 [8848 B] Get: 182 http://deb.debian.org/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b3 [19.3 kB] Get: 183 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get: 184 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b2 [51.9 kB] Get: 185 http://deb.debian.org/debian unstable/main amd64 libdrm-intel1 amd64 2.4.123-1 [63.7 kB] Get: 186 http://deb.debian.org/debian unstable/main amd64 libdrm-radeon1 amd64 2.4.123-1 [22.3 kB] Get: 187 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get: 188 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 189 http://deb.debian.org/debian unstable/main amd64 libllvm19 amd64 1:19.1.3-2 [26.0 MB] Get: 190 http://deb.debian.org/debian unstable/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 191 http://deb.debian.org/debian unstable/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB] Get: 192 http://deb.debian.org/debian unstable/main amd64 mesa-libgallium amd64 24.2.7-1 [9186 kB] Get: 193 http://deb.debian.org/debian unstable/main amd64 libvulkan1 amd64 1.3.296.0-1 [126 kB] Get: 194 http://deb.debian.org/debian unstable/main amd64 libwayland-server0 amd64 1.23.0-1+b1 [34.2 kB] Get: 195 http://deb.debian.org/debian unstable/main amd64 libgbm1 amd64 24.2.7-1 [42.8 kB] Get: 196 http://deb.debian.org/debian unstable/main amd64 libgl1-mesa-dri amd64 24.2.7-1 [43.9 kB] Get: 197 http://deb.debian.org/debian unstable/main amd64 libglx-mesa0 amd64 24.2.7-1 [154 kB] Get: 198 http://deb.debian.org/debian unstable/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 199 http://deb.debian.org/debian unstable/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 200 http://deb.debian.org/debian unstable/main amd64 libasound2-data all 1.2.12-1 [21.0 kB] Get: 201 http://deb.debian.org/debian unstable/main amd64 libasound2t64 amd64 1.2.12-1+b1 [371 kB] Get: 202 http://deb.debian.org/debian unstable/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 203 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 204 http://deb.debian.org/debian unstable/main amd64 libxtst6 amd64 2:1.2.3-1.1+b2 [25.9 kB] Get: 205 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre amd64 21.0.5+11-1 [205 kB] Get: 206 http://deb.debian.org/debian unstable/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 207 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jdk-headless amd64 21.0.5+11-1 [82.8 MB] Get: 208 http://deb.debian.org/debian unstable/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 209 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jdk amd64 21.0.5+11-1 [3360 kB] Get: 210 http://deb.debian.org/debian unstable/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 211 http://deb.debian.org/debian unstable/main amd64 libassuan9 amd64 3.0.1-2 [60.6 kB] Get: 212 http://deb.debian.org/debian unstable/main amd64 gpgconf amd64 2.2.45-2 [120 kB] Get: 213 http://deb.debian.org/debian unstable/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 214 http://deb.debian.org/debian unstable/main amd64 libnpth0t64 amd64 1.6-3.1+b1 [18.2 kB] Get: 215 http://deb.debian.org/debian unstable/main amd64 dirmngr amd64 2.2.45-2 [368 kB] Get: 216 http://deb.debian.org/debian unstable/main amd64 gnupg-l10n all 2.2.45-2 [705 kB] Get: 217 http://deb.debian.org/debian unstable/main amd64 gpg amd64 2.2.45-2 [531 kB] Get: 218 http://deb.debian.org/debian unstable/main amd64 pinentry-curses amd64 1.2.1-4+b1 [79.7 kB] Get: 219 http://deb.debian.org/debian unstable/main amd64 gpg-agent amd64 2.2.45-2 [251 kB] Get: 220 http://deb.debian.org/debian unstable/main amd64 gpgsm amd64 2.2.45-2 [255 kB] Get: 221 http://deb.debian.org/debian unstable/main amd64 gnupg all 2.2.45-2 [376 kB] Get: 222 http://deb.debian.org/debian unstable/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 223 http://deb.debian.org/debian unstable/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 224 http://deb.debian.org/debian unstable/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 225 http://deb.debian.org/debian unstable/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 226 http://deb.debian.org/debian unstable/main amd64 libio-pty-perl amd64 1:1.20-1+b2 [34.3 kB] Get: 227 http://deb.debian.org/debian unstable/main amd64 libipc-run-perl all 20231003.0-2 [101 kB] Get: 228 http://deb.debian.org/debian unstable/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 229 http://deb.debian.org/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b4 [36.1 kB] Get: 230 http://deb.debian.org/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 231 http://deb.debian.org/debian unstable/main amd64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 232 http://deb.debian.org/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get: 233 http://deb.debian.org/debian unstable/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 234 http://deb.debian.org/debian unstable/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 235 http://deb.debian.org/debian unstable/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 236 http://deb.debian.org/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 237 http://deb.debian.org/debian unstable/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 238 http://deb.debian.org/debian unstable/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 239 http://deb.debian.org/debian unstable/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 240 http://deb.debian.org/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 241 http://deb.debian.org/debian unstable/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 242 http://deb.debian.org/debian unstable/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 243 http://deb.debian.org/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 244 http://deb.debian.org/debian unstable/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 245 http://deb.debian.org/debian unstable/main amd64 libhtml-parser-perl amd64 3.83-1+b1 [99.7 kB] Get: 246 http://deb.debian.org/debian unstable/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 247 http://deb.debian.org/debian unstable/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 248 http://deb.debian.org/debian unstable/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 249 http://deb.debian.org/debian unstable/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 250 http://deb.debian.org/debian unstable/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 251 http://deb.debian.org/debian unstable/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 252 http://deb.debian.org/debian unstable/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 253 http://deb.debian.org/debian unstable/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 254 http://deb.debian.org/debian unstable/main amd64 libnet-ssleay-perl amd64 1.94-2 [339 kB] Get: 255 http://deb.debian.org/debian unstable/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get: 256 http://deb.debian.org/debian unstable/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get: 257 http://deb.debian.org/debian unstable/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 258 http://deb.debian.org/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 259 http://deb.debian.org/debian unstable/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 260 http://deb.debian.org/debian unstable/main amd64 libwww-perl all 6.77-1 [183 kB] Get: 261 http://deb.debian.org/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 262 http://deb.debian.org/debian unstable/main amd64 wdiff amd64 1.2.2-6 [119 kB] Get: 263 http://deb.debian.org/debian unstable/main amd64 devscripts all 2.24.3 [1079 kB] Get: 264 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 265 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 266 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 267 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 268 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 269 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 270 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 271 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 272 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 273 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 274 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB] Get: 275 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB] Get: 276 http://deb.debian.org/debian unstable/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 277 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get: 278 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 72.1-5+b1 [210 kB] Get: 279 http://deb.debian.org/debian unstable/main amd64 jarwrapper all 0.80 [9692 B] Get: 280 http://deb.debian.org/debian unstable/main amd64 javahelper all 0.80 [80.4 kB] Get: 281 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.21.3-3 [59.5 kB] Get: 282 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.21.3-3 [41.7 kB] Get: 283 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.21.3-3 [42.0 kB] Get: 284 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.21.3-3 [53.5 kB] Get: 285 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.21.3-3 [126 kB] Get: 286 http://deb.debian.org/debian unstable/main amd64 libabsl20230802 amd64 20230802.1-4 [464 kB] Get: 287 http://deb.debian.org/debian unstable/main amd64 libabsl-dev amd64 20230802.1-4 [1208 kB] Get: 288 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get: 289 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get: 290 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get: 291 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get: 292 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 293 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB] Get: 294 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.21.3-3 [15.7 kB] Get: 295 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.5.18+dfsg-3+b1 [303 kB] Get: 296 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 297 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 298 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 299 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get: 300 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 301 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b2 [329 kB] Get: 302 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b2 [642 kB] Get: 303 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 304 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.22.0-1 [598 kB] Get: 305 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.8-2 [449 kB] Get: 306 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.8-2 [449 kB] Get: 307 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-2+b1 [208 kB] Get: 308 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.19.0-3+b3 [98.9 kB] Get: 309 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10-1+b1 [1317 kB] Get: 310 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.8-2 [1391 kB] Get: 311 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 312 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get: 313 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.3.2-2 [2742 kB] Get: 314 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 315 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 316 http://deb.debian.org/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.11.0-1 [461 kB] Get: 317 http://deb.debian.org/debian unstable/main amd64 libsepol-dev amd64 3.7-1 [370 kB] Get: 318 http://deb.debian.org/debian unstable/main amd64 libpcre2-16-0 amd64 10.44-4 [261 kB] Get: 319 http://deb.debian.org/debian unstable/main amd64 libpcre2-32-0 amd64 10.44-4 [248 kB] Get: 320 http://deb.debian.org/debian unstable/main amd64 libpcre2-posix3 amd64 10.44-4 [60.3 kB] Get: 321 http://deb.debian.org/debian unstable/main amd64 libpcre2-dev amd64 10.44-4 [790 kB] Get: 322 http://deb.debian.org/debian unstable/main amd64 libselinux1-dev amd64 3.7-3+b1 [160 kB] Get: 323 http://deb.debian.org/debian unstable/main amd64 libfuse-dev amd64 2.9.9-9 [1022 kB] Get: 324 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get: 325 http://deb.debian.org/debian unstable/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get: 326 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get: 327 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get: 328 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get: 329 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get: 330 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get: 331 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3+b1 [292 kB] Get: 332 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3+b1 [72.2 kB] Get: 333 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get: 334 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 72.1-5+b1 [10.4 MB] Get: 335 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.3-1+b1 [316 kB] Get: 336 http://deb.debian.org/debian unstable/main amd64 libmagic-dev amd64 1:5.45-3+b1 [121 kB] Get: 337 http://deb.debian.org/debian unstable/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB] Get: 338 http://deb.debian.org/debian unstable/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB] Get: 339 http://deb.debian.org/debian unstable/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB] Get: 340 http://deb.debian.org/debian unstable/main amd64 ncbi-vdb-data all 3.0.9+dfsg-2 [74.0 kB] Get: 341 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb3 amd64 3.0.9+dfsg-2 [1189 kB] Get: 342 http://deb.debian.org/debian unstable/main amd64 libncbi-wvdb3 amd64 3.0.9+dfsg-2 [1191 kB] Get: 343 http://deb.debian.org/debian unstable/main amd64 libncbi-wvdb-dev amd64 3.0.9+dfsg-2 [1311 kB] Get: 344 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb-dev amd64 3.0.9+dfsg-2 [1612 kB] Get: 345 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [1992 kB] Get: 346 http://deb.debian.org/debian unstable/main amd64 libre2-11 amd64 20240501-3+b1 [196 kB] Get: 347 http://deb.debian.org/debian unstable/main amd64 libre2-dev amd64 20240501-3+b1 [255 kB] Get: 348 http://deb.debian.org/debian unstable/main amd64 libsam-extract3 amd64 3.0.9+dfsg-2 [43.6 kB] Get: 349 http://deb.debian.org/debian unstable/main amd64 libsam-extract-dev amd64 3.0.9+dfsg-2 [45.2 kB] Get: 350 http://deb.debian.org/debian unstable/main amd64 libxml2-dev amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [795 kB] Get: 351 http://deb.debian.org/debian unstable/main amd64 maven-repo-helper all 1.11 [142 kB] Get: 352 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 353 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Fetched 306 MB in 52s (5866 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../libapparmor1_3.1.7-1+b3_amd64.deb ... Unpacking libapparmor1:amd64 (3.1.7-1+b3) ... Selecting previously unselected package libsystemd-shared:amd64. Preparing to unpack .../libsystemd-shared_257~rc2-3_amd64.deb ... Unpacking libsystemd-shared:amd64 (257~rc2-3) ... Selecting previously unselected package systemd. Preparing to unpack .../systemd_257~rc2-3_amd64.deb ... Unpacking systemd (257~rc2-3) ... Setting up libapparmor1:amd64 (3.1.7-1+b3) ... Setting up libsystemd-shared:amd64 (257~rc2-3) ... Setting up systemd (257~rc2-3) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20922 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_257~rc2-3_amd64.deb ... Unpacking systemd-sysv (257~rc2-3) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.14.10-6_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-6) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.14.10-6_amd64.deb ... Unpacking dbus-bin (1.14.10-6) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.14.10-6_all.deb ... Unpacking dbus-session-bus-common (1.14.10-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../04-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../05-dbus-daemon_1.14.10-6_amd64.deb ... Unpacking dbus-daemon (1.14.10-6) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../06-dbus-system-bus-common_1.14.10-6_all.deb ... Unpacking dbus-system-bus-common (1.14.10-6) ... Selecting previously unselected package dbus. Preparing to unpack .../07-dbus_1.14.10-6_amd64.deb ... Unpacking dbus (1.14.10-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../09-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package flex. Preparing to unpack .../11-flex_2.6.4-8.2+b3_amd64.deb ... Unpacking flex (2.6.4-8.2+b3) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../12-libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../13-python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21539 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 22601 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../001-libpython3.13-minimal_3.13.0-2_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../002-python3.13-minimal_3.13.0-2_amd64.deb ... Unpacking python3.13-minimal (3.13.0-2) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../003-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../008-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../009-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../010-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../011-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../012-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../013-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package libpam-systemd:amd64. 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Setting up libelf1t64:amd64 (0.192-4) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Dec 24 07:55:31 UTC 2025. Universal Time is now: Wed Dec 24 07:55:31 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... Setting up libasound2-data (1.2.12-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:amd64 (4.13.3-1) ... Setting up libpcre2-32-0:amd64 (10.44-4) ... Setting up libglib2.0-0t64:amd64 (2.82.2-3) ... Setting up libunbound8:amd64 (1.22.0-1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b2) ... Setting up libasound2t64:amd64 (1.2.12-1+b1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libgnutls-dane0t64:amd64 (3.8.8-2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-3+b1) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.36-1) ... Setting up gnupg-l10n (2.2.45-2) ... Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libavahi-common-data:amd64 (0.8-13+b3) ... Setting up libdbus-1-3:amd64 (1.14.10-6) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up comerr-dev:amd64 (2.1-1.47.1-1+b1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:amd64 (3.3.2-2) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.22.5-2) ... Setting up binfmt-support (2.2.2-7) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Created symlink '/etc/systemd/system/multi-user.target.wants/binfmt-support.service' -> '/usr/lib/systemd/system/binfmt-support.service'. Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up icu-devtools (72.1-5+b1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up d-shlibs (0.107) ... Setting up libipc-run-perl (20231003.0-2) ... Setting up libsepol-dev:amd64 (3.7-1) ... Setting up libpcsclite1:amd64 (2.3.0-3) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libsensors5:amd64 (1:3.6.0-10+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libidn2-dev:amd64 (2.3.7-2+b1) ... Setting up libglapi-mesa:amd64 (24.2.7-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libvulkan1:amd64 (1.3.296.0-1) ... Setting up autoconf (2.72-3) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up liblzma-dev:amd64 (5.6.3-1+b1) ... Setting up libxcb-dri2-0:amd64 (1.17.0-2+b1) ... Setting up libgif7:amd64 (5.2.2-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpcre2-posix3:amd64 (10.44-4) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:amd64 (1.3-1+b2) ... Setting up at-spi2-common (2.54.0-1) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.14.10-6) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libassuan9:amd64 (3.0.1-2) ... Setting up procps (2:4.0.4-6) ... Setting up bison (2:3.8.2+dfsg-1+b2) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up librole-tiny-perl (2.002004-1) ... Setting up python3.13-minimal (3.13.0-2) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up ncbi-vdb-data (3.0.9+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.4) ... Setting up libabsl20230802:amd64 (20230802.1-4) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b4) ... Setting up libsam-extract3:amd64 (3.0.9+dfsg-2) ... Setting up cmake-data (3.31.0-1) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libwayland-egl1:amd64 (1.23.0-1+b1) ... Setting up libmbedcrypto16:amd64 (3.6.2-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up dbus-system-bus-common (1.14.10-6) ... useradd: Warning: missing or non-executable shell '/usr/sbin/nologin' Setting up libfile-homedir-perl (1.006-2) ... Setting up libtasn1-6-dev:amd64 (4.19.0-3+b3) ... Setting up openssl (3.3.2-2) ... Setting up libdrm-common (2.4.123-1) ... Setting up libxcomposite1:amd64 (1:0.4.6-1) ... Setting up readline-common (8.2-5) ... Setting up libicu-dev:amd64 (72.1-5+b1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up liburi-perl (5.30-1) ... Setting up dbus-bin (1.14.10-6) ... Setting up libsam-extract-dev:amd64 (3.0.9+dfsg-2) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libfile-touch-perl (0.12-2) ... Setting up libp11-kit-dev:amd64 (0.25.5-2+b1) ... Setting up libsz2:amd64 (1.1.3-1+b1) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up libxkbcommon0:amd64 (1.7.0-1) ... Setting up libwayland-client0:amd64 (1.23.0-1+b1) ... Setting up libnet-ssleay-perl:amd64 (1.94-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.2.1-4+b1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Setting up libllvm19:amd64 (1:19.1.3-2) ... Setting up libx11-xcb1:amd64 (2:1.8.10-2) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libre2-11:amd64 (20240501-3+b1) ... Setting up flex (2.6.4-8.2+b3) ... Setting up gettext (0.22.5-2) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-2+b2) ... Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libpcre2-dev:amd64 (10.44-4) ... Setting up nettle-dev:amd64 (3.10-1+b1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up jarwrapper (0.80) ... Setting up libtool (2.4.7-8) ... Setting up libselinux1-dev:amd64 (3.7-3+b1) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libaec-dev:amd64 (1.1.3-1+b1) ... Setting up libavahi-common3:amd64 (0.8-13+b3) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3+b1) ... Setting up libcloudproviders0:amd64 (0.3.6-1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libnet-http-perl (6.23-1) ... Setting up libnss3:amd64 (2:3.106-1) ... Setting up dbus-daemon (1.14.10-6) ... Setting up libfuse-dev:amd64 (2.9.9-9) ... Setting up libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libcolord2:amd64 (1.4.7-1+b2) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libdconf1:amd64 (0.40.0-4+b3) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libxml2-dev:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libmbedx509-7:amd64 (3.6.2-3) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b2) ... Setting up libldap-dev:amd64 (2.5.18+dfsg-3+b1) ... Setting up dbus (1.14.10-6) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b1) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libabsl-dev:amd64 (20230802.1-4) ... Setting up libmbedtls21:amd64 (3.6.2-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.123-1) ... Setting up groff-base (1.23.0-5) ... Setting up libwayland-cursor0:amd64 (1.23.0-1+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b1) ... Setting up gpgconf (2.2.45-2) ... Setting up libpam-systemd:amd64 (257~rc2-3) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libre2-dev:amd64 (20240501-3+b1) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... Setting up libavahi-client3:amd64 (0.8-13+b3) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.45-2) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libdrm-amdgpu1:amd64 (2.4.123-1) ... Setting up libgnutls28-dev:amd64 (3.8.8-2) ... Setting up gtk-update-icon-cache (4.16.5+ds-2) ... Setting up libnghttp2-dev:amd64 (1.64.0-1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up gpg-agent (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up libcurl4t64:amd64 (8.11.0-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.0-2) ... Setting up libdrm-radeon1:amd64 (2.4.123-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1+b2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.2-1+b1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up gpgsm (2.2.45-2) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libdrm-intel1:amd64 (2.4.123-1) ... Setting up libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.2-2) ... Setting up dirmngr (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/dirmngr.socket' -> '/usr/lib/systemd/user/dirmngr.socket'. Setting up dbus-user-session (1.14.10-6) ... Setting up adwaita-icon-theme (47.0-2) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.016-2) ... Setting up libgssrpc4t64:amd64 (1.21.3-3) ... Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libncbi-wvdb3:amd64 (3.0.9+dfsg-2) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up gnupg (2.2.45-2) ... Setting up cmake (3.31.0-1) ... Setting up libcairo-gobject2:amd64 (1.18.2-2) ... Setting up libncbi-wvdb-dev:amd64 (3.0.9+dfsg-2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libcups2t64:amd64 (2.4.10-2) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-3) ... Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Setting up mesa-libgallium:amd64 (24.2.7-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.7-3) ... Setting up libkdb5-10t64:amd64 (1.21.3-3) ... Setting up libgbm1:amd64 (24.2.7-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up python3.12 (3.12.7-3) ... Setting up libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libgl1-mesa-dri:amd64 (24.2.7-1) ... Setting up libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Setting up debhelper (13.20) ... Setting up dconf-service (0.40.0-4+b3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-3) ... Setting up libncbi-vdb-dev:amd64 (3.0.9+dfsg-2) ... Setting up libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Setting up libpython3-stdlib:amd64 (3.12.7-1) ... Setting up krb5-multidev:amd64 (1.21.3-3) ... Setting up libglx-mesa0:amd64 (24.2.7-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-4+b3) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up libkrb5-dev:amd64 (1.21.3-3) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libcurl4-openssl-dev:amd64 (8.11.0-1) ... Setting up libhdf5-dev (1.10.10+repack-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-typing-extensions (4.12.2-2) ... Setting up libgtk-3-common (3.24.43-4) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.7-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libgtk-3-0t64:amd64 (3.24.43-4) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-setuptools (75.2.0-1) ... Setting up dh-python (6.20241024) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.77-1) ... Setting up devscripts (2.24.3) ... Setting up javahelper (0.80) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for systemd (257~rc2-3) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jre:amd64 (21.0.5+11-1) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.11) ... Setting up default-jre (2:1.21-76) ... Setting up openjdk-21-jdk:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../sra-sdk_3.0.9+dfsg-7_source.changes dpkg-buildpackage: info: source package sra-sdk dpkg-buildpackage: info: source version 3.0.9+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Aaron M. Ucko dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_clean rm -rf ngs/ngs-java/x86_64-linux-gnu rm -rf ngs/ngs-bam/x86_64-linux-gnu rm -f ngs/ngs-bam/Makefile.config rm -f ngs/ngs-bam/Makefile.config.install.linux.x86_64.prl rm -f ngs/ngs-bam/Makefile.config.linux.x86_64 rm -f ngs/ngs-bam/reconfigure rm -rf ngs/ngs-sdk/ngs/unix/generic rm -rf ngs/ngs-sdk/x86_64-linux-gnu rm -rf ngs/ngs-python/build ngs/ngs-python/dist rm -rf ngs/ngs-python/ngs.egg-info find test tools -name actual -type d | xargs -rt rm -rf rm -rf ngs/ngs-*/examples/actual/* rm -fv test/*/*/tmp.kfg rm -rf libs/ngs-vdb/test/data/SparseFragmentBlobs rm -rf test/external/vdb-dump/data test/loaders/bam-load/out.sra find tools/loaders/general-loader/test -name input | xargs -rt rm -rf rm -f ngs/ngs-sdk/examples/actual.txt rm debian/libngs-jni.links rm: cannot remove 'debian/libngs-jni.links': No such file or directory make[1]: [debian/rules:48: override_dh_auto_clean] Error 1 (ignored) make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_configure -- -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu \ -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON \ -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON \ -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF \ -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE .. CMAKE_VERSION=3.31.0 -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at build/env.cmake:32 (cmake_policy): The OLD behavior for policy CMP0115 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. Call Stack (most recent call first): CMakeLists.txt:62 (include) BUILD_TOOLS_INTERNAL=ON BUILD_TOOLS_LOADERS=ON BUILD_TOOLS_TEST_TOOLS=ON TOOLS_ONLY=OFF VERSION=3.0.9 -- Found FLEX: /usr/bin/flex (found suitable version "2.6.4", minimum required is "2.6") -- Found BISON: /usr/bin/bison (found suitable version "3.8.2", minimum required is "3") -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.9.14") LIBXML2_INCLUDE_DIR=/usr/include/libxml2 LIBXML2_LIBRARIES=/usr/lib/x86_64-linux-gnu/libxml2.so -- Found Java: /usr/bin/java (found version "21.0.5") found components: Development -- Found Python3: /usr/bin/python3 (found version "3.12.7") found components: Interpreter Using ncbi-vdb interfaces: /usr/include/ncbi-vdb Using ncbi-vdb binary libraries: /usr/lib/x86_64-linux-gnu -- Looking for C++ include mbedtls/md.h -- Looking for C++ include mbedtls/md.h - not found RUN_SANITIZER_TESTS: OFF -- Found JNI: /usr/lib/jvm/default-java/include found components: AWT JVM -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE RE2_FOUND=FALSE SharQ is not built: ZLIB_FOUND=TRUE BZip2_FOUND=TRUE Threads_FOUND=TRUE RE2_FOUND=FALSE -- Found HDF5: /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libcrypto.so;/usr/lib/x86_64-linux-gnu/libcurl.so;/usr/lib/x86_64-linux-gnu/libpthread.a;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.a;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.10") found components: C CMake Deprecation Warning at tools/test-tools/qa-stats/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. RE2_FOUND=FALSE -- Configuring done (1.7s) -- Generating done (0.6s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_linkjars -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/depend make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/depend make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/depend make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/depend make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared/CMakeFiles/tk-version.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/depend make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs/CMakeFiles/ngs.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/depend make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/DependInfo.cmake "--color=" make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/DependInfo.cmake "--color=" make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/DependInfo.cmake "--color=" make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/DependInfo.cmake "--color=" make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/DependInfo.cmake "--color=" make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml/CMakeFiles/kxml.dir/DependInfo.cmake "--color=" make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader 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make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/DependInfo.cmake "--color=" make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/depend make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose/CMakeFiles/diagnose.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp 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make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/DependInfo.cmake "--color=" make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/depend make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/depend make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/depend make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool/CMakeFiles/sratools.dir/DependInfo.cmake "--color=" make -f 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/DependInfo.cmake "--color=" make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/DependInfo.cmake "--color=" make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/DependInfo.cmake "--color=" make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/build make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javadoc -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc -sourcepath "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java" gov.nih.nlm.ncbi.ngs ngs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/build make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/build make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/build make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/build make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build [ 0%] Building C object shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o [ 0%] Building C object ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"shared\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o -MF CMakeFiles/tk-version.dir/toolkit.vers.c.o.d -o CMakeFiles/tk-version.dir/toolkit.vers.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-py\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o -MF CMakeFiles/ngs-py.dir/py_Manager.c.o.d -o CMakeFiles/ngs-py.dir/py_Manager.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py/py_Manager.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_Manager.c [ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o [ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o [ 1%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build [ 2%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o [ 2%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -MF CMakeFiles/ngs.dir/NCBI-NGS.c.o.d -o CMakeFiles/ngs.dir/NCBI-NGS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NCBI-NGS.c make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build [ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o [ 2%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceSequenceItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -MF CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o.d -o CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_ErrorMsg.c [ 3%] Building Java objects for ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReferenceIterator.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 3%] Building C object libs/kxml/CMakeFiles/kxml.dir/xml.c.o [ 3%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceItf.cpp [ 3%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_AlignmentIteratorItf.cpp [ 3%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadCollectionItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o -MF CMakeFiles/ngs-jni.dir/jni_String.c.o.d -o CMakeFiles/ngs-jni.dir/jni_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_String.c cd 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -MF CMakeFiles/ngs.dir/CSRA1_Alignment.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Alignment.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadCollectionItf.cpp [ 4%] Building C object libs/loader/CMakeFiles/loader.dir/progressbar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -MF CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_PileupEvent.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/progressbar.c.o -MF CMakeFiles/loader.dir/progressbar.c.o.d -o CMakeFiles/loader.dir/progressbar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/progressbar.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReadCollection.cpp [ 4%] Building C object libs/ascp/CMakeFiles/ascp.dir/ascp.c.o [ 4%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o [ 4%] Building CXX object tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o [ 4%] Building CXX object libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o [ 4%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o [ 5%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadCollection.cpp [ 5%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o -MF CMakeFiles/general-writer.dir/general-writer.cpp.o.d -o CMakeFiles/general-writer.dir/general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/general-writer.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -MF CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o.d -o CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/checklookup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -MF CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o.d -o CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_cpp.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o -MF CMakeFiles/qa-stats.dir/main.cpp.o.d -o CMakeFiles/qa-stats.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -MF CMakeFiles/sratools.dir/sratools.cpp.o.d -o CMakeFiles/sratools.dir/sratools.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp [ 5%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o [ 5%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o [ 5%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -MF CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-build-version.cpp [ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -MF CMakeFiles/fastqloader.dir/spot-assembler.c.o.d -o CMakeFiles/fastqloader.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-json-parse.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o -MF CMakeFiles/tui.dir/dir_dlg.c.o.d -o CMakeFiles/tui.dir/dir_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/dir_dlg.c [ 6%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o [ 7%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -MF CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-command-line.cpp [ 7%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o [ 7%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -MF CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o.d -o CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-sdl-response.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -MF CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o.d -o CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-uuid.cpp [ 7%] Building CXX object test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load/sam-platform.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -MF CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o.d -o CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -h ./jni @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_sources [ 7%] Linking C static library ../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -P CMakeFiles/tk-version.dir/cmake_clean_target.cmake [ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Reference.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -E cmake_link_script CMakeFiles/tk-version.dir/link.txt --verbose=1 [ 7%] Building C object libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -MF CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o.d -o CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/utf8-like-int-codec.c [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-file.c.o -MF CMakeFiles/loader.dir/loader-file.c.o.d -o CMakeFiles/loader.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-file.c [ 7%] Linking C static library ../../../ilib/libngs-jni.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -P CMakeFiles/ngs-jni.dir/cmake_clean_target.cmake [ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o [ 7%] Linking C static library ../../../ilib/libngs-py.a /usr/bin/ar qc ../ilib/libtk-version.a "CMakeFiles/tk-version.dir/toolkit.vers.c.o" /usr/bin/ranlib ../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -P CMakeFiles/ngs-py.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-jni.dir/link.txt --verbose=1 [ 7%] Built target tk-version cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-py.dir/link.txt --verbose=1 [ 7%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -MF CMakeFiles/diagnose.dir/endpoint.c.o.d -o CMakeFiles/diagnose.dir/endpoint.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose/endpoint.c [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -MF CMakeFiles/tui.dir/eventring.c.o.d -o CMakeFiles/tui.dir/eventring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/eventring.c /usr/bin/ar qc ../../../ilib/libngs-py.a "CMakeFiles/ngs-py.dir/py_Manager.c.o" /usr/bin/ranlib ../../../ilib/libngs-py.a /usr/bin/ar qc ../../../ilib/libngs-jni.a "CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "CMakeFiles/ngs-jni.dir/jni_String.c.o" "CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../../ilib/libngs-jni.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 7%] Built target ngs-py [ 7%] Built target ngs-jni [ 7%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o [ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -MF CMakeFiles/qa-stats.dir/input.cpp.o.d -o CMakeFiles/qa-stats.dir/input.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/input.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlobIterator.cpp [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o -MF CMakeFiles/fastqloader.dir/common-writer.c.o.d -o CMakeFiles/fastqloader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c [ 7%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReferenceWindow.c [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o [ 7%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o -MF CMakeFiles/tui.dir/line_policy.c.o.d -o CMakeFiles/tui.dir/line_policy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/line_policy.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceItf.cpp [ 7%] Building C object libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -Wno-unused-result -MD -MT libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o -MF CMakeFiles/ascp.dir/unix/connect.c.o.d -o CMakeFiles/ascp.dir/unix/connect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/unix/connect.c [ 7%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3vdb.c [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o [ 7%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o.d -o 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CMakeFiles/kxml.dir/xtoc.c.o.d -o CMakeFiles/kxml.dir/xtoc.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc.c [ 7%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o -MF CMakeFiles/kxml.dir/xtoc-parsexml.c.o.d -o CMakeFiles/kxml.dir/xtoc-parsexml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc-parsexml.c [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/PileupEventItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceSequenceItf.cpp [ 7%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -MF CMakeFiles/sratools.dir/config.cpp.o.d -o CMakeFiles/sratools.dir/config.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/config.cpp [ 7%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -MF CMakeFiles/ngs.dir/CSRA1_Reference.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Reference.c [ 7%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o -MF CMakeFiles/qa-stats.dir/output.cpp.o.d -o CMakeFiles/qa-stats.dir/output.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/output.cpp make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupIterator.cpp [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/loader-meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-meta.c.o -MF CMakeFiles/loader.dir/loader-meta.c.o.d -o CMakeFiles/loader.dir/loader-meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-meta.c [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/queue-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/queue-file.c.o -MF CMakeFiles/loader.dir/queue-file.c.o.d -o CMakeFiles/loader.dir/queue-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/queue-file.c [ 7%] Building CXX object libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -MF CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o.d -o CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_makedb.cpp [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.cpp:36, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp:39: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o -MF CMakeFiles/tui.dir/screen.c.o.d -o CMakeFiles/tui.dir/screen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/screen.c [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentItf.cpp [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o -MF CMakeFiles/loader.dir/alignment-writer.c.o.d -o CMakeFiles/loader.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/alignment-writer.c [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-reader.c.o -MF CMakeFiles/loader.dir/common-reader.c.o.d -o CMakeFiles/loader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-reader.c In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp:59: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 7%] Linking CXX executable ../../../test-bin/Test_BamLoader_platform cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_BamLoader_platform.dir/link.txt --verbose=1 [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o [ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PackageItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlob.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentIteratorItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o -MF 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupEventIteratorItf.cpp [ 9%] Building C object libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o -MF CMakeFiles/ascp.dir/linux/ascp-path.c.o.d -o CMakeFiles/ascp.dir/linux/ascp-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/linux/ascp-path.c [ 9%] Linking CXX static library ../../../../ilib/libtui_cpp.a [ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui_cpp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReadCollection.c [ 9%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Pileup.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_BamLoader_platform.dir/link.d "CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o" -o ../../../test-bin/Test_BamLoader_platform make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui_cpp.dir/link.txt --verbose=1 [ 9%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o -MF CMakeFiles/tui.dir/string_cache.c.o.d -o CMakeFiles/tui.dir/string_cache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/string_cache.c [ 9%] Built target Test_BamLoader_platform [ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o -MF CMakeFiles/ngs.dir/CSRA1_Read.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Read.c /usr/bin/ar qc ../../../../ilib/libtui_cpp.a CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o /usr/bin/ranlib ../../../../ilib/libtui_cpp.a [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/EBI_ReferenceSequence.c [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -MF CMakeFiles/ngs.dir/SRA_Statistics.c.o.d -o CMakeFiles/ngs.dir/SRA_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Statistics.c [ 10%] Built target tui_cpp [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o [ 10%] Linking C static library ../../ilib/libascp.a [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -P CMakeFiles/ascp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/AlignmentItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceSequenceItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ascp.dir/link.txt --verbose=1 [ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupIteratorItf.cpp /usr/bin/ar qc ../../ilib/libascp.a CMakeFiles/ascp.dir/ascp.c.o CMakeFiles/ascp.dir/unix/connect.c.o "CMakeFiles/ascp.dir/linux/ascp-path.c.o" /usr/bin/ranlib ../../ilib/libascp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 10%] Building C object libs/loader/CMakeFiles/loader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-writer.c.o -MF CMakeFiles/loader.dir/common-writer.c.o.d -o CMakeFiles/loader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-writer.c [ 10%] Built target ascp [ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadGroupItf.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupIteratorItf.cpp [ 10%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -MF CMakeFiles/fastqloader.dir/sequence-writer.c.o.d -o CMakeFiles/fastqloader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c [ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupItf.cpp [ 10%] Linking CXX executable ../../../test-bin/Test_Drivertool_BuildVersion Loading source files for package gov.nih.nlm.ncbi.ngs... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_BuildVersion.dir/link.txt --verbose=1 [ 10%] Linking C static library ../../ilib/libkxml.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -P CMakeFiles/kxml.dir/cmake_clean_target.cmake Loading source files for package ngs... [ 10%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -MF CMakeFiles/tui.dir/tui.c.o.d -o CMakeFiles/tui.dir/tui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -E cmake_link_script CMakeFiles/kxml.dir/link.txt --verbose=1 [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -MF CMakeFiles/fastqloader.dir/common-reader.c.o.d -o CMakeFiles/fastqloader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -MF CMakeFiles/fastqloader.dir/fastq-reader.c.o.d -o CMakeFiles/fastqloader.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c /usr/bin/ar qc ../../ilib/libkxml.a CMakeFiles/kxml.dir/xml.c.o "CMakeFiles/kxml.dir/xtoc-parsexml.c.o" CMakeFiles/kxml.dir/xtoc.c.o /usr/bin/ranlib ../../ilib/libkxml.a [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 12%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReference.cpp [ 12%] Built target kxml /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_BuildVersion.dir/link.d "CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o" -o ../../../test-bin/Test_Drivertool_BuildVersion make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 12%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -MF CMakeFiles/fastqloader.dir/id2name.c.o.d -o CMakeFiles/fastqloader.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_DB_ReadCollection.c [ 12%] Built target Test_Drivertool_BuildVersion [ 12%] Linking CXX executable ../../../test-bin/Test_Drivertool_UUID cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_UUID.dir/link.txt --verbose=1 [ 12%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/AlignmentItf.cpp [ 12%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlob.cpp [ 12%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEventIterator.cpp [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o [ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroup.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -MF CMakeFiles/ngs.dir/SRA_Read.c.o.d -o CMakeFiles/ngs.dir/SRA_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Read.c [ 12%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o -MF CMakeFiles/tui.dir/tui_dlg.c.o.d -o CMakeFiles/tui.dir/tui_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventIteratorItf.cpp make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/depend [ 12%] Linking CXX executable ../../../test-bin/Test_Drivertool_Accession [ 12%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_Accession.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o -MF CMakeFiles/sratools.dir/command-line.cpp.o.d -o CMakeFiles/sratools.dir/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/fastq-dump.dir/DependInfo.cmake "--color=" [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build [ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentIteratorItf.cpp [ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o -MF CMakeFiles/sratools.dir/run-source.cpp.o.d -o CMakeFiles/sratools.dir/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp [ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o cd 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CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadCollectionItf.cpp [ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o [ 13%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o -MF CMakeFiles/fastq-dump.dir/factory.c.o.d -o CMakeFiles/fastq-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c [ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEvent.cpp [ 13%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o -MF CMakeFiles/fastq-dump.dir/fasta_dump.c.o.d -o CMakeFiles/fastq-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c [ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/AlignmentIterator.cpp [ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -MF CMakeFiles/sratools.dir/proc.cpp.o.d -o CMakeFiles/sratools.dir/proc.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_UUID.dir/link.d "CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o" -o ../../../test-bin/Test_Drivertool_UUID make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 14%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadItf.cpp [ 14%] Built target Test_Drivertool_UUID [ 14%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Alignment.cpp Constructing Javadoc information... /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_Accession.dir/link.d "CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o" -o ../../../test-bin/Test_Drivertool_Accession make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 14%] Built target Test_Drivertool_Accession [ 14%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o -MF CMakeFiles/fastq-dump.dir/core.c.o.d -o CMakeFiles/fastq-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroupIterator.cpp [ 15%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadIterator.cpp [ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Read.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Read.cpp make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadGroupItf.cpp [ 16%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StatisticsItf.cpp [ 16%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/FragmentItf.cpp [ 16%] Building C object libs/loader/CMakeFiles/loader.dir/mmarray.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/mmarray.c.o -MF CMakeFiles/loader.dir/mmarray.c.o.d -o CMakeFiles/loader.dir/mmarray.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/mmarray.c [ 16%] Linking C static library ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -P CMakeFiles/fastqloader.dir/cmake_clean_target.cmake [ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentItf.cpp [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StringItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastqloader.dir/link.txt --verbose=1 [ 17%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -MF CMakeFiles/fastq-dump.dir/fastq.c.o.d -o CMakeFiles/fastq-dump.dir/fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fastq.c [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/Refcount.cpp [ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadItf.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-makedb.dir/link.d "CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o" -o ../../../test-bin/ngs-makedb -Wl,-Bstatic -lktst -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-checklookup.dir/link.d "CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o" -o ../../../../../test-bin/idx-text-checklookup /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Built target idx-text-checklookup [ 17%] Built target ngs-makedb [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o [ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadCollection.c /usr/bin/ar qc ../../../ilib/libfastqloader.a "CMakeFiles/fastqloader.dir/spot-assembler.c.o" "CMakeFiles/fastqloader.dir/common-writer.c.o" "CMakeFiles/fastqloader.dir/sequence-writer.c.o" "CMakeFiles/fastqloader.dir/common-reader.c.o" "CMakeFiles/fastqloader.dir/fastq-reader.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o" CMakeFiles/fastqloader.dir/id2name.c.o /usr/bin/ranlib ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbAlignment.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Linking CXX static library ../../ilib/libgeneral-writer.a [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -P CMakeFiles/general-writer.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrorMsg.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void printEnvironment(bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void testing_5()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ^ [ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/FragmentItf.cpp [ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -MF CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o.d -o CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/NGS-VDB.cpp [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o [ 17%] Built target fastqloader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReferenceSequence.c [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o [ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StatisticsItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/FragmentIterator.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-writer.dir/link.txt --verbose=1 [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrBlock.cpp [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -MF CMakeFiles/ngs.dir/NGS_Statistics.c.o.d -o CMakeFiles/ngs.dir/NGS_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Statistics.c [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Fragment.cpp /usr/bin/ar qc ../../ilib/libgeneral-writer.a "CMakeFiles/general-writer.dir/general-writer.cpp.o" "CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o" /usr/bin/ranlib ../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Statistics.cpp [ 17%] Built target general-writer [ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/StringRef.cpp [ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupIteratorItf.cpp [ 18%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PackageItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PackageItf.cpp [ 18%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o -MF CMakeFiles/sff-dump.dir/fasta_dump.c.o.d -o CMakeFiles/sff-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c [ 18%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupItf.cpp [ 18%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceItf.cpp [ 18%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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[removal] finalize() in Object has been deprecated and marked for removal protected void finalize () ^ [ 18%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -E cmake_link_script CMakeFiles/diagnose.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/illumina-dump.dir/DependInfo.cmake "--color=" [ 18%] Building C object libs/loader/CMakeFiles/loader.dir/reference-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -MF CMakeFiles/loader.dir/reference-writer.c.o.d -o CMakeFiles/loader.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/reference-writer.c make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/depend /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o -MF CMakeFiles/sratools.dir/SDL-response.cpp.o.d -o CMakeFiles/sratools.dir/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o -MF CMakeFiles/abi-dump.dir/factory.c.o.d -o CMakeFiles/abi-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c [ 18%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o [ 18%] Built target diagnose In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp:36: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong 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tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o -MF CMakeFiles/sratools.dir/build-version.cpp.o.d -o CMakeFiles/sratools.dir/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp [ 19%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o -MF CMakeFiles/tui.dir/tui_dlg_helper.c.o.d -o CMakeFiles/tui.dir/tui_dlg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg_helper.c [ 20%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o -MF CMakeFiles/sratools.dir/file-path.posix.cpp.o.d -o CMakeFiles/sratools.dir/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp Creating destination directory: "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/" [ 20%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX 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CMakeFiles/tui.dir/tui_menu.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_menu.c make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/depend make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup 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tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o -MF CMakeFiles/tui.dir/tui_std_dlg.c.o.d -o CMakeFiles/tui.dir/tui_std_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_std_dlg.c [ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 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tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/dyn_string.c.o -MF CMakeFiles/sra-pileup.dir/dyn_string.c.o.d -o 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o -MF CMakeFiles/tui.dir/tui_widget.c.o.d -o CMakeFiles/tui.dir/tui_widget.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget.c [ 22%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o Building index for all the packages and classes... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o -MF CMakeFiles/tui.dir/tui_widget_button.c.o.d -o CMakeFiles/tui.dir/tui_widget_button.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_button.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StringItf.cpp [ 22%] Linking CXX executable ../../../test-bin/Test_Drivertool_CommandLine [ 22%] Linking CXX static library ../../../ilib/libngs-adapt-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -P CMakeFiles/ngs-adapt-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_CommandLine.dir/link.txt --verbose=1 [ 22%] Linking CXX static library ../../ilib/libngs-vdb.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -P CMakeFiles/ngs-vdb.dir/cmake_clean_target.cmake Standard Doclet version 21.0.5+11-Debian-1 Building tree for all the packages and classes... [ 22%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o -MF CMakeFiles/sam-dump.dir/perf_log.c.o.d -o CMakeFiles/sam-dump.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/depend [ 22%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-adapt-c++.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -MF CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o.d -o CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cmdline_cmn.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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-fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -MF CMakeFiles/loader.dir/sequence-writer.c.o.d -o CMakeFiles/loader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/sequence-writer.c [ 23%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -MF CMakeFiles/sra-pileup.dir/out_redir.c.o.d -o CMakeFiles/sra-pileup.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-vdb.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 23%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o [ 23%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -MF CMakeFiles/fasterq-dump.dir/helper.c.o.d -o CMakeFiles/fasterq-dump.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/helper.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -MF CMakeFiles/ngs.dir/NGS_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_PileupEvent.c /usr/bin/ar qc ../../../ilib/libngs-adapt-c++.a "CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-adapt-c++.a make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 23%] Linking CXX static library ../../../../ilib/libngs-bind-c++.a [ 23%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o [ 23%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o -MF CMakeFiles/sra-pileup.dir/perf_log.c.o.d -o CMakeFiles/sra-pileup.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o -MF CMakeFiles/ngs.dir/NGS_Pileup.c.o.d -o CMakeFiles/ngs.dir/NGS_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Pileup.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -P CMakeFiles/ngs-bind-c++.dir/cmake_clean_target.cmake [ 23%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadIteratorItf.cpp [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceIteratorItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f 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-Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o -MF CMakeFiles/ngs-disp.dir/VTable.cpp.o.d -o CMakeFiles/ngs-disp.dir/VTable.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/VTable.cpp [ 24%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o [ 24%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o -MF CMakeFiles/abi-dump.dir/fasta_dump.c.o.d -o CMakeFiles/abi-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o -MF CMakeFiles/fasterq-dump.dir/arg_helper.c.o.d -o CMakeFiles/fasterq-dump.dir/arg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/arg_helper.c [ 24%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -MF CMakeFiles/fasterq-dump.dir/dflt_defline.c.o.d -o CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/dflt_defline.c [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StatisticsItf.cpp [ 24%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -MF CMakeFiles/sam-dump.dir/rna_splice_log.c.o.d -o CMakeFiles/sam-dump.dir/rna_splice_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/rna_splice_log.c [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceSequenceItf.cpp /usr/bin/ar qc ../../../../ilib/libngs-bind-c++.a "CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-c++.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_CommandLine.dir/link.d 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tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o -MF CMakeFiles/sam-dump.dir/sam-dump-opts.c.o.d -o 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tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o -MF CMakeFiles/sratools.dir/proc.posix.cpp.o.d -o CMakeFiles/sratools.dir/proc.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.posix.cpp [ 24%] Linking C static library ../../ilib/libloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -P CMakeFiles/loader.dir/cmake_clean_target.cmake [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk 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-DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr1.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr1.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-hdr1.c /usr/bin/ar qc ../../ilib/libloader.a CMakeFiles/loader.dir/progressbar.c.o "CMakeFiles/loader.dir/loader-file.c.o" "CMakeFiles/loader.dir/loader-meta.c.o" "CMakeFiles/loader.dir/queue-file.c.o" "CMakeFiles/loader.dir/alignment-writer.c.o" "CMakeFiles/loader.dir/common-reader.c.o" "CMakeFiles/loader.dir/common-writer.c.o" CMakeFiles/loader.dir/mmarray.c.o "CMakeFiles/loader.dir/reference-writer.c.o" "CMakeFiles/loader.dir/sequence-writer.c.o" /usr/bin/ranlib ../../ilib/libloader.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 25%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o [ 25%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -MF CMakeFiles/tui.dir/tui_widget_grid.c.o.d -o CMakeFiles/tui.dir/tui_widget_grid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_grid.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -MF CMakeFiles/ngs.dir/NGS_Alignment.c.o.d -o CMakeFiles/ngs.dir/NGS_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Alignment.c [ 25%] Built target loader [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o -MF CMakeFiles/sra-pileup.dir/cg_tools.c.o.d -o CMakeFiles/sra-pileup.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o -MF CMakeFiles/sam-dump.dir/matecache.c.o.d -o CMakeFiles/sam-dump.dir/matecache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/matecache.c [ 25%] Linking C executable ../../../bin/sff-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-dump.dir/link.txt --verbose=1 [ 25%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o -MF CMakeFiles/abi-dump.dir/core.c.o.d -o CMakeFiles/abi-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 25%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o -MF CMakeFiles/abi-dump.dir/abi.c.o.d -o CMakeFiles/abi-dump.dir/abi.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/abi.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:140: warning: no comment static int all = primaryAlignment | secondaryAlignment; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:176: warning: no comment static int clipLeft = 0; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:177: warning: no comment static int clipRight = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:132: warning: no comment static int maxMapQuality = 8; // pass alignments with mappingQuality <= param ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:131: warning: no comment static int minMapQuality = 4; // pass alignments with mappingQuality >= param ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:133: warning: no comment static int noWraparound = 16; // do not include leading wrapped around alignments to circular references ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:130: warning: no comment static int passDuplicates = 2; // either a PCR or optical duplicate ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:129: warning: no comment static int passFailed = 1; // reads rejected due to platform/vendor quality criteria ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:138: warning: no comment static int primaryAlignment = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:139: warning: no comment static int secondaryAlignment = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:134: warning: no comment static int startWithinSlice = 32; // change slice intersection criteria so that start pos is within slice ^ [ 25%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o -MF CMakeFiles/tui.dir/tui_widget_inputline.c.o.d -o CMakeFiles/tui.dir/tui_widget_inputline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_inputline.c [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/read_fkt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/read_fkt.c.o -MF CMakeFiles/sam-dump.dir/read_fkt.c.o.d -o CMakeFiles/sam-dump.dir/read_fkt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/read_fkt.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o [ 25%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o -MF CMakeFiles/sra-pileup.dir/report_deletes.c.o.d -o CMakeFiles/sra-pileup.dir/report_deletes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/report_deletes.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o -MF CMakeFiles/fasterq-dump.dir/inspector.c.o.d -o CMakeFiles/fasterq-dump.dir/inspector.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c [ 25%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o -MF CMakeFiles/fasterq-dump.dir/err_msg.c.o.d -o CMakeFiles/fasterq-dump.dir/err_msg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/err_msg.c [ 26%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o -MF CMakeFiles/sam-dump.dir/sam-aligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-aligned.c [ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-dump.dir/link.d "CMakeFiles/sff-dump.dir/factory.c.o" "CMakeFiles/sff-dump.dir/fasta_dump.c.o" "CMakeFiles/sff-dump.dir/core.c.o" "CMakeFiles/sff-dump.dir/sff.c.o" -o ../../../bin/sff-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -MF CMakeFiles/fasterq-dump.dir/file_tools.c.o.d -o CMakeFiles/fasterq-dump.dir/file_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_tools.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-dump sff-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3.0.9 sff-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3 sff-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o -MF CMakeFiles/fasterq-dump.dir/var_fmt.c.o.d -o CMakeFiles/fasterq-dump.dir/var_fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/var_fmt.c [ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o [ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -MF CMakeFiles/ngs.dir/NGS_Reference.c.o.d -o CMakeFiles/ngs.dir/NGS_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Reference.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o -MF CMakeFiles/fasterq-dump.dir/flex_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/flex_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/flex_printer.c [ 26%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o -MF CMakeFiles/tui.dir/tui_widget_label.c.o.d -o CMakeFiles/tui.dir/tui_widget_label.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_label.c [ 26%] Built target sff-dump [ 26%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX 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Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o -MF CMakeFiles/tui.dir/tui_widget_progress.c.o.d -o CMakeFiles/tui.dir/tui_widget_progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_progress.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o -MF CMakeFiles/ngs.dir/NGS_Read.c.o.d -o CMakeFiles/ngs.dir/NGS_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Read.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 27%] Linking CXX static library ../../../../ilib/libngs-bind-python.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -P CMakeFiles/ngs-bind-python.dir/cmake_clean_target.cmake [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceSequence.c [ 27%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o [ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_radiobox.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o -MF CMakeFiles/vdb-validate.dir/main.c.o.d -o CMakeFiles/vdb-validate.dir/main.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/main.c [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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-Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o -MF CMakeFiles/ngs.dir/NGS_Cursor.c.o.d -o CMakeFiles/ngs.dir/NGS_Cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Cursor.c [ 28%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o -MF CMakeFiles/sra-pileup.dir/ref_regions.c.o.d -o CMakeFiles/sra-pileup.dir/ref_regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_regions.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 28%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_FragmentItf.cpp [ 28%] Building CXX object tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -MF CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o.d -o CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-corrupt.cpp [ 28%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o -MF CMakeFiles/sra-pileup.dir/4na_ascii.c.o.d -o CMakeFiles/sra-pileup.dir/4na_ascii.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/4na_ascii.c /usr/bin/ar qc ../../../../ilib/libngs-bind-python.a "CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-python.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/DependInfo.cmake "--color=" [ 28%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -MF CMakeFiles/tui.dir/tui_widget_spin_edit.c.o.d -o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_spin_edit.c [ 28%] Built target ngs-bind-python make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build [ 28%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o [ 29%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o -MF CMakeFiles/tui.dir/tui_widget_string_list.c.o.d -o CMakeFiles/tui.dir/tui_widget_string_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_string_list.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker_0.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker_0.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 29%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o -MF CMakeFiles/vdb-validate.dir/check-redact.c.o.d -o CMakeFiles/vdb-validate.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-redact.c [ 29%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-tools.c make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/DependInfo.cmake "--color=" [ 29%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/depend [ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o cd 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-I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -MF CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o.d -o CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-decrypt.c make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/depend make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat/CMakeFiles/sra-stat.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/AlignmentIterator.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain/CMakeFiles/rcexplain.dir/DependInfo.cmake "--color=" [ 29%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -MF CMakeFiles/tui.dir/tui_widget_tabhdr.c.o.d -o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_tabhdr.c make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 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[ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -MF CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o.d -o CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-encrypt.c [ 29%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -MF CMakeFiles/vdb-decrypt.dir/shared.c.o.d -o CMakeFiles/vdb-decrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/rcexplain/CMakeFiles/rcexplain.dir/rcexplain.c.o -MF CMakeFiles/rcexplain.dir/rcexplain.c.o.d -o CMakeFiles/rcexplain.dir/rcexplain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain/rcexplain.c [ 30%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o [ 30%] Linking C executable ../../../bin/fastq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -MF CMakeFiles/vdb-encrypt.dir/shared.c.o.d -o CMakeFiles/vdb-encrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-dump.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:38: warning: no main description * @return What went wrong ^ [ 31%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o [ 31%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o -MF CMakeFiles/fasterq-dump.dir/temp_dir.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_dir.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:49: warning: no comment public ErrorMsg () ^ [ 31%] Linking CXX static library ../../../ilib/libngs-disp.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -P CMakeFiles/ngs-disp.dir/cmake_clean_target.cmake /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:53: warning: no comment public ErrorMsg ( String message ) ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:58: warning: no comment public ErrorMsg ( ErrorMsg obj ) ^ [ 31%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -MF CMakeFiles/fasterq-dump.dir/progress_thread.c.o.d -o CMakeFiles/fasterq-dump.dir/progress_thread.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/progress_thread.c [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o -MF CMakeFiles/srapath.dir/line_iter.c.o.d -o CMakeFiles/srapath.dir/line_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/line_iter.c [ 32%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o -MF CMakeFiles/sra-stat.dir/sra.c.o.d -o CMakeFiles/sra-stat.dir/sra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-disp.dir/link.txt --verbose=1 [ 32%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o -MF CMakeFiles/tui.dir/linux/systui.c.o.d -o CMakeFiles/tui.dir/linux/systui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/linux/systui.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Fragment.html... [ 32%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o -MF CMakeFiles/sra-stat.dir/sra-stat.c.o.d -o CMakeFiles/sra-stat.dir/sra-stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra-stat.c [ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Package.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-dump.dir/link.d "CMakeFiles/fastq-dump.dir/factory.c.o" "CMakeFiles/fastq-dump.dir/fasta_dump.c.o" "CMakeFiles/fastq-dump.dir/core.c.o" "CMakeFiles/fastq-dump.dir/fastq.c.o" -o ../../../bin/fastq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-dump fastq-dump.3.0.9 [ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o [ 32%] Linking C executable ../../../bin/illumina-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3.0.9 fastq-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_StatisticsItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3 fastq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fastq-dump-driver [ 32%] Linking C executable ../../../bin/rcexplain make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cmake -E cmake_link_script CMakeFiles/rcexplain.dir/link.txt --verbose=1 [ 32%] Built target fastq-dump /usr/bin/ar qc ../../../ilib/libngs-disp.a "CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "CMakeFiles/ngs-disp.dir/VTable.cpp.o" "CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-disp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/FragmentIterator.html... [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o -MF CMakeFiles/srapath.dir/repository-mgr.c.o.d -o CMakeFiles/srapath.dir/repository-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/repository-mgr.c [ 32%] Built target ngs-disp Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/LibDependencies.html... [ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_String.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: no comment public class LibDependencies { ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:34: warning: no comment public final static String NCBI_VDB = "ncbi-ngs"; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:30: warning: no comment public final static String NGS_SDK = "ngs-sdk"; ^ [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/services.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: use of default constructor, which does not provide a comment public class LibDependencies { ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/services.c.o -MF CMakeFiles/srapath.dir/services.c.o.d -o CMakeFiles/srapath.dir/services.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/services.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c: In function 'insp_report': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:1165:14: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized] 1165 | rc = KOutMsg( "... is %s\n", s_acc_type ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:248:18: note: 'res' was declared here 248 | const char * res; | ^~~ [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -MF CMakeFiles/srapath.dir/cgi_request.c.o.d -o CMakeFiles/srapath.dir/cgi_request.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/cgi_request.c [ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o -MF CMakeFiles/srapath.dir/srapath.c.o.d -o CMakeFiles/srapath.dir/srapath.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/srapath.c [ 32%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o -MF CMakeFiles/ngs.dir/NGS_Refcount.c.o.d -o CMakeFiles/ngs.dir/NGS_Refcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Refcount.c [ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o -MF CMakeFiles/sam-dump.dir/sam-unaligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-unaligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-unaligned.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/NGS.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rcexplain.dir/link.d CMakeFiles/rcexplain.dir/rcexplain.c.o -o ../../../bin/rcexplain /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-dump.dir/link.d "CMakeFiles/illumina-dump.dir/factory.c.o" "CMakeFiles/illumina-dump.dir/fasta_dump.c.o" "CMakeFiles/illumina-dump.dir/core.c.o" "CMakeFiles/illumina-dump.dir/illumina.c.o" -o ../../../bin/illumina-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Refcount.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rcexplain.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rcexplain rcexplain.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-dump illumina-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3.0.9 illumina-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3.0.9 rcexplain.3 [ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ErrorMsg.cpp [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3 illumina-dump [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: no comment public class NGS ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o -MF CMakeFiles/ngs.dir/NGS_Id.c.o.d -o CMakeFiles/ngs.dir/NGS_Id.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Id.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3 rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: use of default constructor, which does not provide a comment public class NGS ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -MF CMakeFiles/ngs.dir/NGS_String.c.o.d -o CMakeFiles/ngs.dir/NGS_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_String.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:133: warning: no comment public static void main(String[] args) { ^ [ 33%] Built target illumina-dump [ 33%] Linking C executable ../../../bin/abi-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-dump.dir/link.txt --verbose=1 [ 33%] Built target rcexplain [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -MF CMakeFiles/ngs.dir/NGS_ErrBlock.c.o.d -o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ErrBlock.c [ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -MF CMakeFiles/fasterq-dump.dir/cleanup_task.c.o.d -o CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cleanup_task.c [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -MF CMakeFiles/sam-dump.dir/md_flag.c.o.d -o CMakeFiles/sam-dump.dir/md_flag.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/md_flag.c [ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlob.c [ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o -MF CMakeFiles/fasterq-dump.dir/index.c.o.d -o CMakeFiles/fasterq-dump.dir/index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/index.c [ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_writer.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Package.html... [ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o -MF CMakeFiles/sra-pileup.dir/walk_debug.c.o.d -o CMakeFiles/sra-pileup.dir/walk_debug.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/walk_debug.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:37: warning: no main description * @return package version as a 1..3 part string ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:33: warning: use of default constructor, which does not provide a comment public class Package ^ make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-dump.dir/link.d "CMakeFiles/abi-dump.dir/factory.c.o" "CMakeFiles/abi-dump.dir/fasta_dump.c.o" "CMakeFiles/abi-dump.dir/core.c.o" "CMakeFiles/abi-dump.dir/abi.c.o" -o ../../../bin/abi-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Pileup.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-dump abi-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3.0.9 abi-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3 abi-dump [ 33%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o [ 34%] Linking C executable ../../../bin/vdb-encrypt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_reader.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_reader.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-encrypt.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Pileup.java:58: warning: no main description * @return base at current Reference position ^ [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-formats.c [ 34%] Building C object tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o [ 34%] Built target abi-dump [ 34%] Linking C static library ../../../../ilib/libtui.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o -MF CMakeFiles/kdbmeta.dir/kdbmeta.c.o.d -o CMakeFiles/kdbmeta.dir/kdbmeta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/kdbmeta/kdbmeta.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui.dir/cmake_clean_target.cmake [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -MF CMakeFiles/fasterq-dump.dir/locked_file_list.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_file_list.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEvent.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:118: warning: no comment static int alignment_minus_strand = 0x20; ^ [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:116: warning: no comment static int alignment_start = 0x80; ^ [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:117: warning: no comment make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/depend static int alignment_stop = 0x40; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o -MF CMakeFiles/fasterq-dump.dir/locked_value.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_value.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_value.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:98: warning: no comment static int deletion = 2; cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o -MF CMakeFiles/fasterq-dump.dir/file_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/file_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_printer.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info/CMakeFiles/align-info.dir/DependInfo.cmake "--color=" ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:104: warning: no comment static int insertion = 0x08; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:112: warning: no comment static int insertion_before_deletion = insertion | deletion; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:107: warning: no comment static int insertion_before_match = insertion | match; ^ [ 34%] Linking C executable ../../../bin/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:108: warning: no comment static int insertion_before_mismatch = insertion | mismatch; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:180: warning: no comment static int intron_minus = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:179: warning: no comment static int intron_plus = 1; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-decrypt.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:181: warning: no comment static int intron_unknown = 3; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:97: warning: no comment static int mismatch = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:191: warning: no comment static int read_gap = 5; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:186: warning: no comment static int read_overlap = 4; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:113: warning: no comment static int replacement = insertion_before_deletion; ^ make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra/CMakeFiles/test-sra.dir/DependInfo.cmake "--color=" [ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlobIterator.c make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/build [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o -MF CMakeFiles/sra-pileup.dir/pileup_counters.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_counters.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_counters.c make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make 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/usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-encrypt.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/align-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cache-mgr\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -MF CMakeFiles/cache-mgr.dir/cache-mgr.c.o.d -o CMakeFiles/cache-mgr.dir/cache-mgr.c.o -c 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[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o [ 34%] Built target vdb-decrypt [ 34%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o -MF CMakeFiles/bam-load.dir/bam-loader.c.o.d -o CMakeFiles/bam-load.dir/bam-loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam-loader.c [ 34%] Linking CXX executable ../../../test-bin/Test_Drivertool_JsonParsing cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_JsonParsing.dir/link.txt --verbose=1 [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o -MF CMakeFiles/sra-pileup.dir/pileup_index.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_index.c make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/build [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-fastq.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Read.html... make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar.dir/DependInfo.cmake "--color=" [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o -MF CMakeFiles/samview.dir/bam.c.o.d -o CMakeFiles/samview.dir/bam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-inspect.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_report': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:702:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 702 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:699:17: note: 'data' declared here 699 | report_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:35: warning: no comment public interface Read ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:696:41: note: 'octx' declared here 696 | static rc_t perform_report( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_unlock': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:905:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 905 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:902:17: note: 'data' declared here 902 | unlock_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:899:41: note: 'octx' declared here 899 | static rc_t perform_unlock( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_clear': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:990:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 990 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:987:16: note: 'data' declared here 987 | clear_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:984:40: note: 'octx' declared here 984 | static rc_t perform_clear( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:79: warning: no comment static int aligned = fullyAligned | partiallyAligned; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:81: warning: no comment static int all = aligned | unaligned; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:78: warning: no comment static int partiallyAligned = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:80: warning: no comment static int unaligned = 4; ^ [ 34%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -MF CMakeFiles/kar.dir/kar-path.c.o.d -o CMakeFiles/kar.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o [ 34%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o [ 34%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o -MF CMakeFiles/sra-info.dir/formatter.cpp.o.d -o CMakeFiles/sra-info.dir/formatter.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/formatter.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o -MF CMakeFiles/sra-pileup.dir/pileup_indels.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_indels.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_indels.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -MF CMakeFiles/sra-info.dir/sra-info.cpp.o.d -o CMakeFiles/sra-info.dir/sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/sra-info.cpp [ 34%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o -MF CMakeFiles/test-sra.dir/unix/PrintOS.c.o.d -o CMakeFiles/test-sra.dir/unix/PrintOS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/unix/PrintOS.c [ 34%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -MF CMakeFiles/kar.dir/kar-args.c.o.d -o CMakeFiles/kar.dir/kar-args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-args.c [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -MF CMakeFiles/vdb-dump.dir/vdb_info.c.o.d -o CMakeFiles/vdb-dump.dir/vdb_info.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb_info.c [ 34%] Linking CXX static library ../../../../ilib/libngs-bind-java.a [ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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CMakeFiles/ngs-bind-java.dir/cmake_clean_target.cmake Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadCollection.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:88: warning: no main description * @param spec the name of a contained read group ^ [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:121: warning: no main description * @param spec the name of a contained Reference ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o -MF CMakeFiles/samview.dir/sam.c.o.d -o CMakeFiles/samview.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -MF CMakeFiles/fasterq-dump.dir/merge_sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/merge_sorter.c [ 34%] Linking C executable ../../../bin/srapath Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cmake -E cmake_link_script CMakeFiles/srapath.dir/link.txt --verbose=1 [ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-java.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o -MF CMakeFiles/fasterq-dump.dir/sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/sorter.c [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o -MF CMakeFiles/bam-load.dir/sam.c.o.d -o CMakeFiles/bam-load.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o -MF CMakeFiles/bam-load.dir/bam.c.o.d -o CMakeFiles/bam-load.dir/bam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_JsonParsing.dir/link.d "CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o" -o ../../../test-bin/Test_Drivertool_JsonParsing make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlobIterator.c [ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o -MF CMakeFiles/bam-load.dir/alignment-writer.c.o.d -o CMakeFiles/bam-load.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/alignment-writer.c [ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -MF CMakeFiles/sra-pileup.dir/pileup_varcount.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_varcount.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroup.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroupIterator.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadIterator.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadIterator.java:34: warning: no comment public interface ReadIterator ^ [ 34%] Built target Test_Drivertool_JsonParsing Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Reference.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srapath.dir/link.d CMakeFiles/srapath.dir/helper.c.o CMakeFiles/srapath.dir/line_iter.c.o "CMakeFiles/srapath.dir/repository-mgr.c.o" CMakeFiles/srapath.dir/services.c.o CMakeFiles/srapath.dir/cgi_request.c.o CMakeFiles/srapath.dir/srapath.c.o -o ../../../bin/srapath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srapath.3.0.9 [ 35%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -MF CMakeFiles/ngs.dir/VByteBlob.c.o.d -o CMakeFiles/ngs.dir/VByteBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/VByteBlob.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srapath srapath.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3.0.9 srapath.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3 srapath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 srapath-driver cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_compiled_ngs-java make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/ar qc ../../../../ilib/libngs-bind-java.a "CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-java.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 35%] Built target srapath [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o [ 35%] Built target ngs-bind-java cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o -MF CMakeFiles/sam-dump.dir/cg_tools.c.o.d -o CMakeFiles/sam-dump.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceIterator.html... [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o [ 35%] Generating CMakeFiles/ngs-java.dir/java_class_filelist Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceSequence.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o -MF CMakeFiles/sra-pileup.dir/pileup_stat.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_stat.c [ 35%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o -MF CMakeFiles/samview.dir/samview.c.o.d -o CMakeFiles/samview.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/samview.c [ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -MF CMakeFiles/sra-pileup.dir/pileup_v2.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_v2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_v2.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o -MF CMakeFiles/sra-pileup.dir/sra-pileup.c.o.d -o CMakeFiles/sra-pileup.dir/sra-pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c [ 36%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -MF CMakeFiles/kar.dir/kar.c.o.d -o CMakeFiles/kar.dir/kar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar.c [ 36%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o -MF CMakeFiles/bam-load.dir/reference-writer.c.o.d -o CMakeFiles/bam-load.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/reference-writer.c [ 36%] Linking C executable ../../../bin/align-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-info.dir/link.txt --verbose=1 [ 36%] Creating Java archive ngs-java.jar [ 36%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Statistics.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar @java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o -MF CMakeFiles/bam-load.dir/sequence-writer.c.o.d -o CMakeFiles/bam-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sequence-writer.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:41: warning: no comment static int int64 = 2; ^ [ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:43: warning: no comment static int real = 4; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o -MF CMakeFiles/sam-dump.dir/sam-dump.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c [ 37%] Linking C executable ../../../bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:40: warning: no comment static int string = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:42: warning: no comment static int uint64 = 3; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdbmeta.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c:1416:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1416 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ [ 37%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -MF CMakeFiles/fasterq-dump.dir/cmn_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cmn_iter.c [ 37%] Linking C static library ../../../ilib/libngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -P CMakeFiles/ngs.dir/cmake_clean_target.cmake [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -MF CMakeFiles/sam-dump.dir/sam-dump3.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-summary.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-info.dir/link.d "CMakeFiles/align-info.dir/align-info.c.o" -o ../../../bin/align-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-info align-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3.0.9 align-info.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3 align-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-tree.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-summary.html... [ 38%] Built target align-info [ 38%] Linking C executable ../../../bin/cache-mgr [ 38%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cmake -E cmake_link_script CMakeFiles/cache-mgr.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -MF CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/raw_read_iter.c [ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -MF CMakeFiles/sam-dump.dir/dyn_string.c.o.d -o CMakeFiles/sam-dump.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/dyn_string.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/build Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-tree.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c:557:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 557 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c: In function 'SAM_Dump_Main': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c:4387:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 4387 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/constant-values.html... [ 38%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o [ 38%] Linking CXX executable ../../../bin/check-corrupt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -MF CMakeFiles/fasterq-dump.dir/special_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/special_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/special_iter.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-corrupt.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdbmeta.dir/link.d CMakeFiles/kdbmeta.dir/kdbmeta.c.o -o ../../../bin/kdbmeta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdbmeta.3.0.9 [ 38%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdbmeta kdbmeta.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o -MF CMakeFiles/kar+.dir/kar-path.c.o.d -o CMakeFiles/kar+.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3.0.9 kdbmeta.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3 kdbmeta /usr/bin/ar qc ../../../ilib/libngs.a "CMakeFiles/ngs.dir/NCBI-NGS.c.o" CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o CMakeFiles/ngs.dir/CSRA1_Reference.c.o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o CMakeFiles/ngs.dir/CSRA1_Read.c.o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o CMakeFiles/ngs.dir/SRA_Statistics.c.o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_Read.c.o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Statistics.c.o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o CMakeFiles/ngs.dir/NGS_Pileup.c.o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o CMakeFiles/ngs.dir/NGS_Alignment.c.o CMakeFiles/ngs.dir/NGS_Reference.c.o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Read.c.o CMakeFiles/ngs.dir/NGS_Fragment.c.o CMakeFiles/ngs.dir/NGS_Cursor.c.o CMakeFiles/ngs.dir/NGS_Refcount.c.o CMakeFiles/ngs.dir/NGS_String.c.o CMakeFiles/ngs.dir/NGS_Id.c.o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o CMakeFiles/ngs.dir/VByteBlob.c.o /usr/bin/ranlib ../../../ilib/libngs.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/serialized-form.html... [ 38%] Built target kdbmeta [ 39%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_ua_iter.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-tree.html... [ 39%] Built target ngs Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index.html... [ 39%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o -MF CMakeFiles/bam-load.dir/mem-bank.cpp.o.d -o CMakeFiles/bam-load.dir/mem-bank.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/mem-bank.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cache-mgr.dir/link.d "CMakeFiles/cache-mgr.dir/cache-mgr.c.o" -o ../../../bin/cache-mgr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cache-mgr.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cache-mgr cache-mgr.3.0.9 [ 40%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -MF CMakeFiles/kar+.dir/kar+args.c.o.d -o CMakeFiles/kar+.dir/kar+args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+args.c make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+meta.dir/DependInfo.cmake "--color=" make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Building index for all classes... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allclasses-index.html... [ 40%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_csra_iter.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 40%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o -MF CMakeFiles/fasterq-dump.dir/align_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/align_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/align_iter.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allpackages-index.html... [ 40%] Built target cache-mgr [ 40%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o -MF CMakeFiles/kar+.dir/kar+print.c.o.d -o CMakeFiles/kar+.dir/kar+print.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+print.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/build make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index-all.html... make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/DependInfo.cmake "--color=" [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -MF CMakeFiles/sra-sort.dir/caps.c.o.d -o CMakeFiles/sra-sort.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-corrupt.dir/link.d "CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o" -o ../../../bin/check-corrupt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-corrupt.3.0.9 [ 41%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -MF CMakeFiles/kar+meta.dir/kar+util.c.o.d -o CMakeFiles/kar+meta.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-corrupt check-corrupt.3.0.9 [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -MF CMakeFiles/sra-sort.dir/mem.c.o.d -o CMakeFiles/sra-sort.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -MF CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o.d -o CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dump-blob-boundaries.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3.0.9 check-corrupt.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3 check-corrupt [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o -MF CMakeFiles/sra-sort.dir/membank.c.o.d -o CMakeFiles/sra-sort.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c [ 41%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -MF CMakeFiles/kar+meta.dir/kar+meta.c.o.d -o CMakeFiles/kar+meta.dir/kar+meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+meta.c [ 41%] Built target check-corrupt [ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -MF CMakeFiles/sra-sort-cg.dir/caps.c.o.d -o CMakeFiles/sra-sort-cg.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c [ 42%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-summary.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/help-doc.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 42%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/sff-load.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -MF CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/simple_fasta_iter.c [ 42%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o [ 42%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o [ 42%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -MF CMakeFiles/sra-sort.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o -MF CMakeFiles/fasterq-dump.dir/db_join.c.o.d -o CMakeFiles/fasterq-dump.dir/db_join.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/db_join.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o -MF CMakeFiles/latf-load.dir/spot-assembler.c.o.d -o CMakeFiles/latf-load.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c 52 warnings make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/build [ 42%] Built target ngs-java make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 43%] Linking C executable ../../../bin/vdb-validate make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-validate.dir/link.txt --verbose=1 [ 43%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o [ 43%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o -MF CMakeFiles/sra-sort-cg.dir/mem.c.o.d -o CMakeFiles/sra-sort-cg.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o -MF CMakeFiles/sff-load.dir/pstring.c.o.d -o CMakeFiles/sff-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 44%] Built target ngs-doc_javadoc [ 45%] Linking C executable ../../../bin/dump-blob-boundaries [ 45%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o -MF CMakeFiles/latf-load.dir/common-writer.c.o.d -o CMakeFiles/latf-load.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/dump-blob-boundaries.dir/link.txt --verbose=1 [ 45%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o -MF CMakeFiles/sra-sort.dir/except.c.o.d -o 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c [ 45%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o -MF CMakeFiles/sff-load.dir/common-xml.c.o.d -o CMakeFiles/sff-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/fastq-load.dir/DependInfo.cmake "--color=" [ 45%] Linking C executable ../../../bin/sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-pileup.dir/link.txt --verbose=1 [ 45%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o -MF CMakeFiles/sra-sort.dir/map-file.c.o.d -o CMakeFiles/sra-sort.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/srf-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-validate.dir/link.d "CMakeFiles/vdb-validate.dir/main.c.o" "CMakeFiles/vdb-validate.dir/vdb-validate.c.o" "CMakeFiles/vdb-validate.dir/check-redact.c.o" -o ../../../bin/vdb-validate /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 46%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o [ 46%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-validate.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -MF CMakeFiles/sra-sort-cg.dir/membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -MF CMakeFiles/fastq-load.dir/pstring.c.o.d -o CMakeFiles/fastq-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-validate vdb-validate.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3.0.9 vdb-validate.3 /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3DefaultRowEst': cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3 vdb-validate make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/depend [ 46%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/abi-load.dir/DependInfo.cmake "--color=" [ 46%] Built target vdb-validate cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o -MF CMakeFiles/srf-load.dir/pstring.c.o.d -o CMakeFiles/srf-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~ [ 47%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -MF CMakeFiles/latf-load.dir/sequence-writer.c.o.d -o CMakeFiles/latf-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/build [ 47%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o -MF CMakeFiles/srf-load.dir/common-xml.c.o.d -o CMakeFiles/srf-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c [ 47%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -MF CMakeFiles/latf-load.dir/common-reader.c.o.d -o CMakeFiles/latf-load.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/dump-blob-boundaries.dir/link.d "CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o" -o ../../../bin/dump-blob-boundaries /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-pileup.dir/link.d "CMakeFiles/sra-pileup.dir/dyn_string.c.o" "CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o" "CMakeFiles/sra-pileup.dir/out_redir.c.o" "CMakeFiles/sra-pileup.dir/perf_log.c.o" "CMakeFiles/sra-pileup.dir/reref.c.o" "CMakeFiles/sra-pileup.dir/cg_tools.c.o" "CMakeFiles/sra-pileup.dir/report_deletes.c.o" "CMakeFiles/sra-pileup.dir/ref_regions.c.o" "CMakeFiles/sra-pileup.dir/4na_ascii.c.o" "CMakeFiles/sra-pileup.dir/ref_walker_0.c.o" "CMakeFiles/sra-pileup.dir/ref_walker.c.o" "CMakeFiles/sra-pileup.dir/walk_debug.c.o" "CMakeFiles/sra-pileup.dir/pileup_counters.c.o" "CMakeFiles/sra-pileup.dir/pileup_index.c.o" "CMakeFiles/sra-pileup.dir/pileup_indels.c.o" "CMakeFiles/sra-pileup.dir/pileup_varcount.c.o" "CMakeFiles/sra-pileup.dir/pileup_stat.c.o" "CMakeFiles/sra-pileup.dir/pileup_v2.c.o" "CMakeFiles/sra-pileup.dir/sra-pileup.c.o" -o ../../../bin/sra-pileup /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:11540: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~~~~~ [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-blob-boundaries.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-pileup.3.0.9 [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o -MF CMakeFiles/sff-load.dir/experiment-xml.c.o.d -o CMakeFiles/sff-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -MF CMakeFiles/abi-load.dir/pstring.c.o.d -o CMakeFiles/abi-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv dump-blob-boundaries dump-blob-boundaries.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-pileup sra-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3.0.9 dump-blob-boundaries.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3.0.9 sra-pileup.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3 sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sra-pileup-driver cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3 dump-blob-boundaries make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o [ 48%] Linking C executable ../../../bin/kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -MF CMakeFiles/sff-load.dir/run-xml.c.o.d -o CMakeFiles/sff-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar.dir/link.txt --verbose=1 make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/illumina-load.dir/DependInfo.cmake "--color=" [ 48%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o -MF CMakeFiles/abi-load.dir/common-xml.c.o.d -o CMakeFiles/abi-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ [ 48%] Built target dump-blob-boundaries [ 48%] Built target sra-pileup make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build [ 48%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o -MF CMakeFiles/sra-sort.dir/col-pair.c.o.d -o CMakeFiles/sra-sort.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~~~~~ [ 48%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o -MF CMakeFiles/illumina-load.dir/pstring.c.o.d -o CMakeFiles/illumina-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o -MF CMakeFiles/fastq-load.dir/common-xml.c.o.d -o CMakeFiles/fastq-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c [ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-mmapbank.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar.dir/link.d "CMakeFiles/kar.dir/kar-path.c.o" "CMakeFiles/kar.dir/kar-args.c.o" CMakeFiles/kar.dir/kar.c.o -o ../../../bin/kar /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar.3.0.9 [ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o -MF CMakeFiles/sra-sort-cg.dir/except.c.o.d -o CMakeFiles/sra-sort-cg.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o -MF CMakeFiles/illumina-load.dir/common-xml.c.o.d -o CMakeFiles/illumina-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar kar.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3.0.9 kar.3 [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o -MF CMakeFiles/illumina-load.dir/experiment-xml.c.o.d -o CMakeFiles/illumina-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3 kar make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ [ 49%] Linking C executable ../../../bin/kar+meta [ 49%] Built target kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+meta.dir/link.txt --verbose=1 make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/depend [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/helicos-load.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o -MF CMakeFiles/illumina-load.dir/run-xml.c.o.d -o CMakeFiles/illumina-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o -MF CMakeFiles/illumina-load.dir/loader-file.c.o.d -o CMakeFiles/illumina-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o [ 49%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -MF CMakeFiles/illumina-load.dir/loader-fmt.c.o.d -o CMakeFiles/illumina-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o -MF CMakeFiles/fasterq-dump.dir/temp_registry.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_registry.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_registry.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o -MF CMakeFiles/illumina-load.dir/sra-writer.c.o.d -o CMakeFiles/illumina-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o -MF CMakeFiles/illumina-load.dir/loader.c.o.d -o CMakeFiles/illumina-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o -MF CMakeFiles/helicos-load.dir/pstring.c.o.d -o CMakeFiles/helicos-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 49%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+meta.dir/link.d CMakeFiles/kar+meta.dir/kar+util.c.o CMakeFiles/kar+meta.dir/kar+meta.c.o -o ../../../bin/kar+meta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+meta.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o -MF CMakeFiles/sff-load.dir/loader-file.c.o.d -o CMakeFiles/sff-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+meta kar+meta.3.0.9 [ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3.0.9 kar+meta.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3 kar+meta make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 49%] Built target kar+meta [ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -MF CMakeFiles/sra-sort-cg.dir/map-file.c.o.d -o CMakeFiles/sra-sort-cg.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c [ 50%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -MF CMakeFiles/fasterq-dump.dir/copy_machine.c.o.d -o CMakeFiles/fasterq-dump.dir/copy_machine.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/copy_machine.c [ 50%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o -MF CMakeFiles/sff-load.dir/loader-fmt.c.o.d -o CMakeFiles/sff-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 50%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o -MF CMakeFiles/helicos-load.dir/common-xml.c.o.d -o CMakeFiles/helicos-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:3453:44: warning: "/*" within comment [-Wcomment] 3453 | int const logLevel = klogWarn; /*G.assembleWithSecondary ? klogWarn : klogErr; /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:4163:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 4163 | rc = KLoaderMeta_Write(node, progName, __DATE__, "BAM", KAppVersion()); | ^~~~~~~~ [ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c [ 50%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o [ 50%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -MF CMakeFiles/fastq-load.dir/experiment-xml.c.o.d -o CMakeFiles/fastq-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c [ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o -MF CMakeFiles/latf-load.dir/fastq-reader.c.o.d -o CMakeFiles/latf-load.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o -MF CMakeFiles/fastq-load.dir/run-xml.c.o.d -o CMakeFiles/fastq-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o -MF CMakeFiles/srf-load.dir/experiment-xml.c.o.d -o CMakeFiles/srf-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-lex.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o -MF CMakeFiles/fastq-load.dir/loader-file.c.o.d -o CMakeFiles/fastq-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -MF CMakeFiles/abi-load.dir/experiment-xml.c.o.d -o CMakeFiles/abi-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 51%] Linking C executable ../../../bin/kar+ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+.dir/link.txt --verbose=1 [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 51%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o -MF CMakeFiles/sff-load.dir/loader.c.o.d -o CMakeFiles/sff-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/DependInfo.cmake "--color=" [ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o [ 52%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o -MF CMakeFiles/illumina-load.dir/illumina-fmt.c.o.d -o CMakeFiles/illumina-load.dir/illumina-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/illumina-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o -MF CMakeFiles/illumina-load.dir/writer-illumina.c.o.d -o CMakeFiles/illumina-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c [ 52%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 52%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o [ 53%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o -MF CMakeFiles/fasterq-dump.dir/concatenator.c.o.d -o CMakeFiles/fasterq-dump.dir/concatenator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/concatenator.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+.dir/link.d "CMakeFiles/kar+.dir/kar-path.c.o" CMakeFiles/kar+.dir/kar+args.c.o CMakeFiles/kar+.dir/kar+print.c.o CMakeFiles/kar+.dir/kar+util.c.o CMakeFiles/kar+.dir/kar+.c.o -o ../../../bin/kar+ /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+ kar+.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3.0.9 kar+.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3 kar+ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 53%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o [ 53%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -MF CMakeFiles/fasterq-dump.dir/ref_inventory.c.o.d -o CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/ref_inventory.c [ 53%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o [ 53%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o -MF CMakeFiles/abi-load.dir/loader-file.c.o.d -o CMakeFiles/abi-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 53%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/loader-imp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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CMakeFiles/test-sra.dir/link.txt --verbose=1 [ 55%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o -MF CMakeFiles/abi-load.dir/sra-writer.c.o.d -o CMakeFiles/abi-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 55%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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../../../bin/samview cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/common-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview.dir/link.txt --verbose=1 [ 56%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c [ 56%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o -MF CMakeFiles/sra-sort.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra.dir/link.d "CMakeFiles/test-sra.dir/test-sra.c.o" "CMakeFiles/test-sra.dir/unix/PrintOS.c.o" -o ../../../bin/test-sra ../../../ilib/libascp.a ../../../ilib/libdiagnose.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-sra.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-sra test-sra.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3.0.9 test-sra.3 [ 56%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3 test-sra make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 56%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 56%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o -MF CMakeFiles/srf-load.dir/run-xml.c.o.d -o CMakeFiles/srf-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 56%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o -MF CMakeFiles/fastq-load.dir/sra-writer.c.o.d -o CMakeFiles/fastq-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 56%] Built target test-sra [ 57%] Linking C executable ../../../bin/vdb-dump /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview.dir/link.d CMakeFiles/samview.dir/bam.c.o CMakeFiles/samview.dir/sam.c.o CMakeFiles/samview.dir/samview.c.o -o ../../../bin/samview /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lz [ 57%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o [ 57%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o -MF CMakeFiles/srf-load.dir/loader-file.c.o.d -o CMakeFiles/srf-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5arrayfile.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview samview.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3.0.9 samview.3 [ 57%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -MF CMakeFiles/srf-load.dir/loader-fmt.c.o.d -o CMakeFiles/srf-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3 samview make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o -MF CMakeFiles/sra-sort.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o [ 57%] Built target samview cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o -MF CMakeFiles/sra-sort.dir/db-pair.c.o.d -o CMakeFiles/sra-sort.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c [ 57%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c make -f tools/loaders/cg-load/CMakeFiles/cg-load.dir/build.make tools/loaders/cg-load/CMakeFiles/cg-load.dir/depend [ 58%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/sra-writer.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load/CMakeFiles/cg-load.dir/DependInfo.cmake "--color=" make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/CMakeFiles/general-loader.dir/DependInfo.cmake "--color=" [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o -MF CMakeFiles/fastq-load.dir/loader.c.o.d -o CMakeFiles/fastq-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -MF CMakeFiles/srf-load.dir/loader.c.o.d -o CMakeFiles/srf-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/cg-load/CMakeFiles/cg-load.dir/build.make tools/loaders/cg-load/CMakeFiles/cg-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/general-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/general-loader.cpp.o -MF CMakeFiles/general-loader.dir/general-loader.cpp.o.d -o CMakeFiles/general-loader.dir/general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/general-loader.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump.dir/link.d "CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o" "CMakeFiles/vdb-dump.dir/vdb_info.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump.c.o" -o ../../../bin/vdb-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-dump vdb-dump.3.0.9 [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o [ 59%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o -MF CMakeFiles/helicos-load.dir/run-xml.c.o.d -o CMakeFiles/helicos-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 59%] Linking C executable ../../../bin/illumina-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-load.dir/link.txt --verbose=1 [ 60%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o -MF CMakeFiles/helicos-load.dir/loader-file.c.o.d -o CMakeFiles/helicos-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3.0.9 vdb-dump.3 [ 60%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o -MF CMakeFiles/fastq-load.dir/writer-illumina.c.o.d -o CMakeFiles/fastq-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3 vdb-dump [ 60%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 vdb-dump-driver [ 60%] Linking C executable ../../../bin/latf-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/latf-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 60%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/run-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 60%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o -MF CMakeFiles/helicos-load.dir/loader-fmt.c.o.d -o CMakeFiles/helicos-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 60%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o [ 60%] Built target vdb-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o -MF CMakeFiles/general-loader.dir/protocol-parser.cpp.o.d -o CMakeFiles/general-loader.dir/protocol-parser.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/protocol-parser.cpp make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c: In function 'DB_Fini': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c:229:65: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 229 | if( (rc = KLoaderMeta_Write(node, p->argv0, __DATE__, "Complete Genomics", KAppVersion())) != 0 ) { | ^~~~~~~~ [ 60%] Linking C executable ../../../bin/fasterq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fasterq-dump.dir/link.txt --verbose=1 [ 61%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-file.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 62%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build [ 62%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o -MF CMakeFiles/general-loader.dir/main.cpp.o.d -o CMakeFiles/general-loader.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o -MF CMakeFiles/general-loader.dir/database-loader.cpp.o.d -o CMakeFiles/general-loader.dir/database-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 62%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c [ 62%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o [ 63%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o -MF CMakeFiles/sff-load.dir/writer-454.c.o.d -o CMakeFiles/sff-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -MF CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o.d -o CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp [ 63%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/sff-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/latf-load.dir/link.d "CMakeFiles/latf-load.dir/spot-assembler.c.o" "CMakeFiles/latf-load.dir/common-writer.c.o" "CMakeFiles/latf-load.dir/sequence-writer.c.o" "CMakeFiles/latf-load.dir/common-reader.c.o" "CMakeFiles/latf-load.dir/fastq-reader.c.o" "CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o" "CMakeFiles/latf-load.dir/zz_fastq-lex.c.o" "CMakeFiles/latf-load.dir/id2name.c.o" "CMakeFiles/latf-load.dir/fastq-loader.c.o" "CMakeFiles/latf-load.dir/loader-imp.c.o" -o ../../../bin/latf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f latf-load.3.0.9 [ 64%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -MF CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o.d -o CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv latf-load latf-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3.0.9 latf-load.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-load.dir/link.d "CMakeFiles/illumina-load.dir/pstring.c.o" "CMakeFiles/illumina-load.dir/common-xml.c.o" "CMakeFiles/illumina-load.dir/experiment-xml.c.o" "CMakeFiles/illumina-load.dir/run-xml.c.o" "CMakeFiles/illumina-load.dir/loader-file.c.o" "CMakeFiles/illumina-load.dir/loader-fmt.c.o" "CMakeFiles/illumina-load.dir/sra-writer.c.o" "CMakeFiles/illumina-load.dir/loader.c.o" "CMakeFiles/illumina-load.dir/writer-illumina.c.o" "CMakeFiles/illumina-load.dir/illumina-fmt.c.o" -o ../../../bin/illumina-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3 latf-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-load illumina-load.3.0.9 [ 65%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3.0.9 illumina-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5dir.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3 illumina-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target latf-load [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o [ 65%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -MF CMakeFiles/sff-load.dir/sff-fmt.c.o.d -o CMakeFiles/sff-load.dir/sff-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sff-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5file.c [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o [ 65%] Built target illumina-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o -MF CMakeFiles/helicos-load.dir/sra-writer.c.o.d -o CMakeFiles/helicos-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fasterq-dump.dir/link.d "CMakeFiles/fasterq-dump.dir/helper.c.o" "CMakeFiles/fasterq-dump.dir/arg_helper.c.o" "CMakeFiles/fasterq-dump.dir/dflt_defline.c.o" "CMakeFiles/fasterq-dump.dir/tool_ctx.c.o" "CMakeFiles/fasterq-dump.dir/inspector.c.o" "CMakeFiles/fasterq-dump.dir/sbuffer.c.o" "CMakeFiles/fasterq-dump.dir/err_msg.c.o" "CMakeFiles/fasterq-dump.dir/file_tools.c.o" "CMakeFiles/fasterq-dump.dir/var_fmt.c.o" "CMakeFiles/fasterq-dump.dir/flex_printer.c.o" "CMakeFiles/fasterq-dump.dir/temp_dir.c.o" "CMakeFiles/fasterq-dump.dir/progress_thread.c.o" "CMakeFiles/fasterq-dump.dir/cleanup_task.c.o" "CMakeFiles/fasterq-dump.dir/index.c.o" "CMakeFiles/fasterq-dump.dir/lookup_writer.c.o" "CMakeFiles/fasterq-dump.dir/lookup_reader.c.o" "CMakeFiles/fasterq-dump.dir/locked_file_list.c.o" "CMakeFiles/fasterq-dump.dir/locked_value.c.o" "CMakeFiles/fasterq-dump.dir/file_printer.c.o" "CMakeFiles/fasterq-dump.dir/merge_sorter.c.o" "CMakeFiles/fasterq-dump.dir/sorter.c.o" "CMakeFiles/fasterq-dump.dir/cmn_iter.c.o" "CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o" "CMakeFiles/fasterq-dump.dir/special_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o" "CMakeFiles/fasterq-dump.dir/align_iter.c.o" "CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o" "CMakeFiles/fasterq-dump.dir/db_join.c.o" "CMakeFiles/fasterq-dump.dir/tbl_join.c.o" "CMakeFiles/fasterq-dump.dir/temp_registry.c.o" "CMakeFiles/fasterq-dump.dir/copy_machine.c.o" "CMakeFiles/fasterq-dump.dir/multi_writer.c.o" "CMakeFiles/fasterq-dump.dir/concatenator.c.o" "CMakeFiles/fasterq-dump.dir/ref_inventory.c.o" "CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o" -o ../../../bin/fasterq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fasterq-dump.3.0.9 [ 65%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -MF CMakeFiles/srf-load.dir/srf.c.o.d -o CMakeFiles/srf-load.dir/srf.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fasterq-dump fasterq-dump.3.0.9 [ 65%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c [ 65%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3.0.9 fasterq-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -MF CMakeFiles/fastq-load.dir/writer-454.c.o.d -o CMakeFiles/fastq-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:32: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/../database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3 fasterq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fasterq-dump-driver [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c [ 66%] Built target fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:619:86: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 619 | REQUIRE_EQ ( string ( __DATE__), GetDbMetadataAttr ( "SOFTWARE/loader", "date" ) ); | ^ [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o -MF CMakeFiles/fastq-load.dir/fastq-fmt.c.o.d -o CMakeFiles/fastq-load.dir/fastq-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/fastq-fmt.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-intervals.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-dnbs.c [ 66%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o -MF CMakeFiles/test-general-loader.dir/testsource.cpp.o.d -o CMakeFiles/test-general-loader.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -MF CMakeFiles/cg-load.dir/factory-mappings.c.o.d -o CMakeFiles/cg-load.dir/factory-mappings.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -MF CMakeFiles/cg-load.dir/factory-reads.c.o.d -o CMakeFiles/cg-load.dir/factory-reads.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-reads.c [ 66%] Linking C executable ../../../bin/sra-stat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-stat.dir/link.txt --verbose=1 [ 66%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o -MF CMakeFiles/sra-sort.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o [ 66%] Linking C executable ../../../bin/sam-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o -MF CMakeFiles/srf-load.dir/srf-fmt.c.o.d -o CMakeFiles/srf-load.dir/srf-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-dump.dir/link.txt --verbose=1 [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -MF CMakeFiles/cg-load.dir/factory-tag-lfr.c.o.d -o CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-tag-lfr.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -MF CMakeFiles/srf-load.dir/writer-illumina.c.o.d -o CMakeFiles/srf-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c [ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -MF CMakeFiles/cg-load.dir/f1_3.c.o.d -o CMakeFiles/cg-load.dir/f1_3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_3.c [ 66%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -MF CMakeFiles/pacbio-load.dir/pl-context.c.o.d -o CMakeFiles/pacbio-load.dir/pl-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-context.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -MF CMakeFiles/helicos-load.dir/writer-helicos.c.o.d -o CMakeFiles/helicos-load.dir/writer-helicos.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-helicos.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o -MF CMakeFiles/helicos-load.dir/loader.c.o.d -o CMakeFiles/helicos-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o -MF CMakeFiles/srf-load.dir/ztr-illumina.c.o.d -o CMakeFiles/srf-load.dir/ztr-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-illumina.c [ 66%] Linking C executable ../../../bin/sff-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-load.dir/link.txt --verbose=1 [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pacbio-fmt.c [ 66%] Linking C executable ../../../bin/abi-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-load.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-stat.dir/link.d "CMakeFiles/sra-stat.dir/assembly-statistics.c.o" "CMakeFiles/sra-stat.dir/sra.c.o" "CMakeFiles/sra-stat.dir/sra-stat.c.o" -o ../../../bin/sra-stat ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-stat.3.0.9 make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-stat sra-stat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3.0.9 sra-stat.3 make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3 sra-stat make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 66%] Linking CXX executable ../../../bin/qa-stats cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qa-stats.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 66%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -MF CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o.d -o CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-gw-dumper.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-dump.dir/link.d "CMakeFiles/sam-dump.dir/inputfiles.c.o" "CMakeFiles/sam-dump.dir/perf_log.c.o" "CMakeFiles/sam-dump.dir/rna_splice_log.c.o" "CMakeFiles/sam-dump.dir/sam-dump-opts.c.o" "CMakeFiles/sam-dump.dir/out_redir.c.o" "CMakeFiles/sam-dump.dir/sam-hdr.c.o" "CMakeFiles/sam-dump.dir/sam-hdr1.c.o" "CMakeFiles/sam-dump.dir/matecache.c.o" "CMakeFiles/sam-dump.dir/read_fkt.c.o" "CMakeFiles/sam-dump.dir/sam-aligned.c.o" "CMakeFiles/sam-dump.dir/sam-unaligned.c.o" "CMakeFiles/sam-dump.dir/md_flag.c.o" "CMakeFiles/sam-dump.dir/cg_tools.c.o" "CMakeFiles/sam-dump.dir/sam-dump.c.o" "CMakeFiles/sam-dump.dir/sam-dump3.c.o" "CMakeFiles/sam-dump.dir/dyn_string.c.o" -o ../../../bin/sam-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sam-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sam-dump sam-dump.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3.0.9 sam-dump.3 [ 66%] Built target sra-stat [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings15_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:248:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 248 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:225:14: note: 'tmp' declared here 225 | char tmp[2]; | ^~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o -MF CMakeFiles/helicos-load.dir/helicos-fmt.c.o.d -o CMakeFiles/helicos-load.dir/helicos-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/helicos-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3 sam-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sam-dump-driver [ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o -MF CMakeFiles/srf-load.dir/srf-illumina.c.o.d -o CMakeFiles/srf-load.dir/srf-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-illumina.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/db-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c [ 67%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o -MF CMakeFiles/makeinputs.dir/makeinputs.cpp.o.d -o CMakeFiles/makeinputs.dir/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/makeinputs.cpp [ 67%] Built target sam-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 67%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -MF CMakeFiles/cg-load.dir/f1_5.c.o.d -o CMakeFiles/cg-load.dir/f1_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_5.c [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o -MF CMakeFiles/srf-load.dir/writer-absolid.c.o.d -o CMakeFiles/srf-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c [ 67%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-load.dir/link.d "CMakeFiles/sff-load.dir/pstring.c.o" "CMakeFiles/sff-load.dir/common-xml.c.o" "CMakeFiles/sff-load.dir/experiment-xml.c.o" "CMakeFiles/sff-load.dir/run-xml.c.o" "CMakeFiles/sff-load.dir/loader-file.c.o" "CMakeFiles/sff-load.dir/loader-fmt.c.o" "CMakeFiles/sff-load.dir/sra-writer.c.o" "CMakeFiles/sff-load.dir/loader.c.o" "CMakeFiles/sff-load.dir/writer-454.c.o" "CMakeFiles/sff-load.dir/writer-ion-torrent.c.o" "CMakeFiles/sff-load.dir/sff-fmt.c.o" -o ../../../bin/sff-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -MF CMakeFiles/makeinputs.dir/testsource.cpp.o.d -o CMakeFiles/makeinputs.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp [ 67%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -MF CMakeFiles/pacbio-load.dir/pl-tools.c.o.d -o CMakeFiles/pacbio-load.dir/pl-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-tools.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-load sff-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3.0.9 sff-load.3 [ 67%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3 sff-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -MF CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o.d -o CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-load.dir/link.d "CMakeFiles/abi-load.dir/pstring.c.o" "CMakeFiles/abi-load.dir/common-xml.c.o" "CMakeFiles/abi-load.dir/experiment-xml.c.o" "CMakeFiles/abi-load.dir/run-xml.c.o" "CMakeFiles/abi-load.dir/loader-file.c.o" "CMakeFiles/abi-load.dir/loader-fmt.c.o" "CMakeFiles/abi-load.dir/sra-writer.c.o" "CMakeFiles/abi-load.dir/loader.c.o" "CMakeFiles/abi-load.dir/writer-absolid.c.o" "CMakeFiles/abi-load.dir/absolid-fmt.c.o" -o ../../../bin/abi-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-load abi-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3.0.9 abi-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3 abi-load [ 67%] Built target sff-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/depend [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/DependInfo.cmake "--color=" [ 67%] Built target abi-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings22_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:311:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 311 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:287:14: note: 'tmp' declared here 287 | char tmp[2]; | ^~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c [ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o -MF CMakeFiles/srf-load.dir/ztr-absolid.c.o.d -o CMakeFiles/srf-load.dir/ztr-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-absolid.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/qa-stats.dir/link.d "CMakeFiles/qa-stats.dir/main.cpp.o" "CMakeFiles/qa-stats.dir/input.cpp.o" "CMakeFiles/qa-stats.dir/output.cpp.o" -o ../../../bin/qa-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -MF CMakeFiles/srf-load.dir/ztr-huffman.c.o.d -o CMakeFiles/srf-load.dir/ztr-huffman.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-huffman.c [ 68%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o -MF CMakeFiles/pacbio-load.dir/pl-zmw.c.o.d -o CMakeFiles/pacbio-load.dir/pl-zmw.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-zmw.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build [ 68%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -MF CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o.d -o CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o [ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -MF CMakeFiles/sra-sort.dir/run.c.o.d -o CMakeFiles/sra-sort.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -MF CMakeFiles/srf-load.dir/srf-absolid.c.o.d -o CMakeFiles/srf-load.dir/srf-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-absolid.c [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o cd 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-Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o -MF CMakeFiles/vdb-lock.dir/vdb-lock.c.o.d -o CMakeFiles/vdb-lock.dir/vdb-lock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock/vdb-lock.c [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c [ 68%] Linking C executable ../../../bin/fastq-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-load.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -MF CMakeFiles/sra-sort.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c [ 68%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -MF CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o.d -o CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-basecalls_cmn.c [ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 69%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o -MF CMakeFiles/sra-sort.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o -MF CMakeFiles/pacbio-load.dir/pl-sequence.c.o.d -o CMakeFiles/pacbio-load.dir/pl-sequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-sequence.c [ 69%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings25_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:382:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 382 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:358:14: note: 'tmp' declared here 358 | char tmp[2]; | ^~~ [ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o [ 69%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o -MF CMakeFiles/pacbio-load.dir/pl-consensus.c.o.d -o CMakeFiles/pacbio-load.dir/pl-consensus.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-consensus.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c [ 69%] Linking C executable ../../../bin/vdb-lock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-lock.dir/link.txt --verbose=1 [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o -MF CMakeFiles/pacbio-load.dir/pl-metrics.c.o.d -o CMakeFiles/pacbio-load.dir/pl-metrics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-metrics.c [ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o [ 70%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o -MF CMakeFiles/sra-sort-cg.dir/run.c.o.d -o CMakeFiles/sra-sort-cg.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c [ 70%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -MF CMakeFiles/sra-sort-cg.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o -MF CMakeFiles/pacbio-load.dir/pl-passes.c.o.d -o CMakeFiles/pacbio-load.dir/pl-passes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-passes.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -MF CMakeFiles/pacbio-load.dir/pl-regions.c.o.d -o CMakeFiles/pacbio-load.dir/pl-regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-regions.c [ 70%] Linking CXX executable ../../../test-bin/Test_Drivertool_SDLResponse cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_SDLResponse.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-load.dir/link.d "CMakeFiles/fastq-load.dir/pstring.c.o" "CMakeFiles/fastq-load.dir/common-xml.c.o" "CMakeFiles/fastq-load.dir/experiment-xml.c.o" "CMakeFiles/fastq-load.dir/run-xml.c.o" "CMakeFiles/fastq-load.dir/loader-file.c.o" "CMakeFiles/fastq-load.dir/loader-fmt.c.o" "CMakeFiles/fastq-load.dir/sra-writer.c.o" "CMakeFiles/fastq-load.dir/loader.c.o" "CMakeFiles/fastq-load.dir/writer-illumina.c.o" "CMakeFiles/fastq-load.dir/writer-454.c.o" "CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o" "CMakeFiles/fastq-load.dir/fastq-fmt.c.o" -o ../../../bin/fastq-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-lock.dir/link.d "CMakeFiles/vdb-lock.dir/vdb-lock.c.o" -o ../../../bin/vdb-lock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 71%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c [ 71%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-lock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o -MF CMakeFiles/pacbio-load.dir/pl-progress.c.o.d -o CMakeFiles/pacbio-load.dir/pl-progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-progress.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-load fastq-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-lock vdb-lock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3.0.9 fastq-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3 fastq-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 71%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3.0.9 vdb-lock.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o -MF CMakeFiles/pacbio-load.dir/pacbio-load.c.o.d -o CMakeFiles/pacbio-load.dir/pacbio-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3 vdb-lock [ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -MF CMakeFiles/cg-load.dir/f1_7.c.o.d -o CMakeFiles/cg-load.dir/f1_7.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_7.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/DependInfo.cmake "--color=" [ 71%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 71%] Built target fastq-load make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache/CMakeFiles/align-cache.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 71%] Built target vdb-lock make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract/CMakeFiles/ccextract.dir/DependInfo.cmake "--color=" [ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -MF CMakeFiles/cg-load.dir/f2_2.c.o.d -o CMakeFiles/cg-load.dir/f2_2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_2.c [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -MF CMakeFiles/cg-load.dir/f2_0.c.o.d -o CMakeFiles/cg-load.dir/f2_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_0.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/build [ 72%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o [ 72%] Building C object tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-unlock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -MF CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o.d -o CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock/vdb-unlock.c [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -MF CMakeFiles/cg-load.dir/f2_4.c.o.d -o CMakeFiles/cg-load.dir/f2_4.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_4.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c: In function 'pacbio_meta_entry': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c:219:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 219 | rc = KLoaderMeta_Write( node, toolname, __DATE__, "PacBio HDF5", KAppVersion() ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -MF CMakeFiles/align-cache.dir/align-cache.cpp.o.d -o CMakeFiles/align-cache.dir/align-cache.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/align-cache.cpp [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o -MF CMakeFiles/cg-load.dir/f2_5.c.o.d -o CMakeFiles/cg-load.dir/f2_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_5.c make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/depend [ 72%] Linking C executable ../../../bin/sra-sort make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat/CMakeFiles/copycat.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort.dir/link.txt --verbose=1 make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/DependInfo.cmake "--color=" [ 72%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o -MF CMakeFiles/align-cache.dir/helper.cpp.o.d -o CMakeFiles/align-cache.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/helper.cpp [ 72%] Building C object tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ccextract\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -MF CMakeFiles/ccextract.dir/ccextract.c.o.d -o CMakeFiles/ccextract.dir/ccextract.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract/ccextract.c [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o -MF CMakeFiles/cg-load.dir/file.c.o.d -o CMakeFiles/cg-load.dir/file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -MF CMakeFiles/cg-load.dir/file-version-factory.c.o.d -o 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter/make-read-filter.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_SDLResponse.dir/link.d "CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o" -o ../../../test-bin/Test_Drivertool_SDLResponse [ 72%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd 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../../../bin/vdb-unlock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-unlock.dir/link.txt --verbose=1 [ 73%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o -MF CMakeFiles/copycat.dir/cccat.c.o.d -o CMakeFiles/copycat.dir/cccat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cccat.c [ 73%] Built target Test_Drivertool_SDLResponse make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o -MF CMakeFiles/copycat.dir/cctar.c.o.d -o CMakeFiles/copycat.dir/cctar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctar.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o -MF CMakeFiles/cg-load.dir/formats.c.o.d -o CMakeFiles/cg-load.dir/formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/formats.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb 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-D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o -MF CMakeFiles/copycat.dir/cctree-dump.c.o.d -o CMakeFiles/copycat.dir/cctree-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree-dump.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy/CMakeFiles/meta-copy.dir/DependInfo.cmake "--color=" [ 73%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o [ 73%] Linking C executable ../../../bin/helicos-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/helicos-load.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -MF CMakeFiles/cg-load.dir/writer-algn.c.o.d -o CMakeFiles/cg-load.dir/writer-algn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-algn.c [ 74%] Building C object tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-cmp\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o -MF CMakeFiles/meta-cmp.dir/meta-cmp.c.o.d -o CMakeFiles/meta-cmp.dir/meta-cmp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp/meta-cmp.c [ 74%] Linking CXX executable ../../../../test-bin/test-gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-gw-dumper.dir/link.txt --verbose=1 [ 74%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -MF CMakeFiles/copycat.dir/ccsra.c.o.d -o CMakeFiles/copycat.dir/ccsra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsra.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort.dir/link.d "CMakeFiles/sra-sort.dir/caps.c.o" "CMakeFiles/sra-sort.dir/mem.c.o" "CMakeFiles/sra-sort.dir/membank.c.o" "CMakeFiles/sra-sort.dir/paged-membank.c.o" "CMakeFiles/sra-sort.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort.dir/except.c.o" "CMakeFiles/sra-sort.dir/idx-mapping.c.o" "CMakeFiles/sra-sort.dir/map-file.c.o" "CMakeFiles/sra-sort.dir/col-pair.c.o" "CMakeFiles/sra-sort.dir/row-set.c.o" "CMakeFiles/sra-sort.dir/simple-row-set.c.o" "CMakeFiles/sra-sort.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort.dir/meta-pair.c.o" "CMakeFiles/sra-sort.dir/dir-pair.c.o" "CMakeFiles/sra-sort.dir/tbl-pair.c.o" "CMakeFiles/sra-sort.dir/db-pair.c.o" "CMakeFiles/sra-sort.dir/glob-poslen.c.o" "CMakeFiles/sra-sort.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort.dir/buff-writer.c.o" "CMakeFiles/sra-sort.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort.dir/run.c.o" "CMakeFiles/sra-sort.dir/sra-sort.c.o" "CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort.dir/csra-tbl.c.o" "CMakeFiles/sra-sort.dir/csra-pair.c.o" -o ../../../bin/sra-sort /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort sra-sort.3.0.9 [ 74%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-dnbs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3.0.9 sra-sort.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3 sra-sort /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-unlock.dir/link.d "CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o" -o ../../../bin/vdb-unlock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-unlock.3.0.9 [ 74%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -MF CMakeFiles/copycat.dir/ccsubchunk.c.o.d -o CMakeFiles/copycat.dir/ccsubchunk.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsubchunk.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-unlock vdb-unlock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3.0.9 vdb-unlock.3 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp: In function 'void run(const char*, bool, const int32_t*, const int32_t*, const int8_t*, int)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:76:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 76 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:45:20: note: 'gw' was declared here 45 | GeneralWriter *gw; | ^~ [ 74%] Building C object tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -MF CMakeFiles/meta-copy.dir/meta-copy.c.o.d -o CMakeFiles/meta-copy.dir/meta-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy/meta-copy.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3 vdb-unlock [ 74%] Linking C executable ../../../bin/srf-load [ 74%] Built target sra-sort cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/srf-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-intervals.c [ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o -MF CMakeFiles/cg-load.dir/writer-seq.c.o.d -o CMakeFiles/cg-load.dir/writer-seq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-seq.c [ 75%] Built target vdb-unlock [ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -MF CMakeFiles/copycat.dir/ccfile.c.o.d -o CMakeFiles/copycat.dir/ccfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfile.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c: In function 'CCFileFormatIsFastq': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:275:27: warning: 'seq_len' may be used uninitialized [-Wmaybe-uninitialized] 275 | if(quality_values_len != seq_len) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:193:12: note: 'seq_len' was declared here 193 | size_t seq_len,quality_values_len,seq_id_len; | ^~~~~~~ [ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o [ 75%] Linking C executable ../../../bin/sra-sort-cg cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -MF CMakeFiles/copycat.dir/kff/fileformat.c.o.d -o CMakeFiles/copycat.dir/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort-cg.dir/link.txt --verbose=1 [ 75%] Linking C executable ../../../bin/pacbio-loadxml cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-loadxml.dir/link.txt --verbose=1 make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair/CMakeFiles/meta-repair.dir/DependInfo.cmake "--color=" make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/depend In file included from /usr/include/c++/14/ios:42, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc/general-writer/general-writer.hpp:34, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:30: In static member function 'static std::size_t std::char_traits::length(const char_type*)', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const _CharT*, const _Alloc&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/14/bits/basic_string.h:653:49, inlined from 'void run(const char*, TestCaseType, const std::string*, int)' at /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:77:25: /usr/include/c++/14/bits/char_traits.h:391:32: warning: 'db_schema' may be used uninitialized [-Wmaybe-uninitialized] 391 | return __builtin_strlen(__s); | ~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp: In function 'void run(const char*, TestCaseType, const std::string*, int)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:57:21: note: 'db_schema' was declared here 57 | const char* db_schema; | ^~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:101:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 101 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:54:20: note: 'gw' was declared here 54 | GeneralWriter *gw; | ^~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-gw-dumper.dir/link.d "CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o" -o ../../../../test-bin/test-gw-dumper ../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o -MF CMakeFiles/copycat.dir/kff/ffext.c.o.d -o CMakeFiles/copycat.dir/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/DependInfo.cmake "--color=" [ 75%] Linking C executable ../../../bin/ccextract [ 75%] Building C object tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccextract.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/meta-repair\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -MF CMakeFiles/meta-repair.dir/meta-repair.c.o.d -o CMakeFiles/meta-repair.dir/meta-repair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair/meta-repair.c [ 75%] Linking C executable ../../../bin/meta-cmp [ 75%] Built target test-gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-cmp.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 76%] Building C object tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -MF CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o.d -o CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/test-read-write-cursor.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/helicos-load.dir/link.d "CMakeFiles/helicos-load.dir/pstring.c.o" "CMakeFiles/helicos-load.dir/common-xml.c.o" "CMakeFiles/helicos-load.dir/experiment-xml.c.o" "CMakeFiles/helicos-load.dir/run-xml.c.o" "CMakeFiles/helicos-load.dir/loader-file.c.o" "CMakeFiles/helicos-load.dir/loader-fmt.c.o" "CMakeFiles/helicos-load.dir/sra-writer.c.o" "CMakeFiles/helicos-load.dir/loader.c.o" "CMakeFiles/helicos-load.dir/writer-helicos.c.o" "CMakeFiles/helicos-load.dir/helicos-fmt.c.o" -o ../../../bin/helicos-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f helicos-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv helicos-load helicos-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3.0.9 helicos-load.3 [ 76%] Building C object tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -MF CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o.d -o CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3 helicos-load make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 76%] Linking CXX executable ../../../../../test-bin/bio-end-makeinputs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/DependInfo.cmake "--color=" [ 77%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/bio-end-makeinputs.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -MF CMakeFiles/copycat.dir/kff/ffkey.c.o.d -o CMakeFiles/copycat.dir/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c [ 77%] Linking C executable ../../../bin/md5cp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cmake -E cmake_link_script CMakeFiles/md5cp.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srf-load.dir/link.d "CMakeFiles/srf-load.dir/pstring.c.o" "CMakeFiles/srf-load.dir/common-xml.c.o" "CMakeFiles/srf-load.dir/experiment-xml.c.o" "CMakeFiles/srf-load.dir/run-xml.c.o" "CMakeFiles/srf-load.dir/loader-file.c.o" "CMakeFiles/srf-load.dir/loader-fmt.c.o" "CMakeFiles/srf-load.dir/sra-writer.c.o" "CMakeFiles/srf-load.dir/loader.c.o" "CMakeFiles/srf-load.dir/srf.c.o" "CMakeFiles/srf-load.dir/srf-fmt.c.o" "CMakeFiles/srf-load.dir/writer-illumina.c.o" "CMakeFiles/srf-load.dir/ztr-illumina.c.o" "CMakeFiles/srf-load.dir/srf-illumina.c.o" "CMakeFiles/srf-load.dir/writer-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-huffman.c.o" "CMakeFiles/srf-load.dir/srf-absolid.c.o" -o ../../../bin/srf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so [ 77%] Linking C executable ../../../bin/meta-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srf-load.3.0.9 make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-copy.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srf-load srf-load.3.0.9 [ 77%] Built target helicos-load make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3.0.9 srf-load.3 [ 77%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort-cg.dir/link.d "CMakeFiles/sra-sort-cg.dir/caps.c.o" "CMakeFiles/sra-sort-cg.dir/mem.c.o" "CMakeFiles/sra-sort-cg.dir/membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort-cg.dir/except.c.o" "CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o" "CMakeFiles/sra-sort-cg.dir/map-file.c.o" "CMakeFiles/sra-sort-cg.dir/col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/row-set.c.o" "CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/meta-pair.c.o" "CMakeFiles/sra-sort-cg.dir/dir-pair.c.o" "CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o" "CMakeFiles/sra-sort-cg.dir/db-pair.c.o" "CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o" "CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort-cg.dir/buff-writer.c.o" "CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort-cg.dir/run.c.o" "CMakeFiles/sra-sort-cg.dir/sra-sort.c.o" "CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o" "CMakeFiles/sra-sort-cg.dir/csra-pair.c.o" -o ../../../bin/sra-sort-cg /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -MF CMakeFiles/copycat.dir/kff/ffmagic.c.o.d -o CMakeFiles/copycat.dir/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact/CMakeFiles/check-redact.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3 srf-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort-cg.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort-cg sra-sort-cg.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3.0.9 sra-sort-cg.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-cmp.dir/link.d "CMakeFiles/meta-cmp.dir/meta-cmp.c.o" -o ../../../bin/meta-cmp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o -MF CMakeFiles/vdb-copy.dir/context.c.o.d -o CMakeFiles/vdb-copy.dir/context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/context.c make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3 sra-sort-cg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-cmp.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-cmp meta-cmp.3.0.9 [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -MF CMakeFiles/vdb-copy.dir/helper.c.o.d -o CMakeFiles/vdb-copy.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/helper.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target srf-load make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3.0.9 meta-cmp.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target sra-sort-cg [ 77%] Building C object tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/check-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o -MF CMakeFiles/check-redact.dir/check-redact.c.o.d -o CMakeFiles/check-redact.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact/check-redact.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3 meta-cmp make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download/CMakeFiles/test-download.dir/DependInfo.cmake "--color=" [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 77%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c:755:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 755 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o -MF CMakeFiles/vdb-diff.dir/coldefs.c.o.d -o CMakeFiles/vdb-diff.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/coldefs.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o -MF CMakeFiles/vdb-copy.dir/coldefs.c.o.d -o CMakeFiles/vdb-copy.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/coldefs.c [ 77%] Building C object tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o [ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -MF CMakeFiles/vdb-copy.dir/get_platform.c.o.d -o CMakeFiles/vdb-copy.dir/get_platform.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/get_platform.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -MF CMakeFiles/crc32sum.dir/crc32sum.c.o.d -o CMakeFiles/crc32sum.dir/crc32sum.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum/crc32sum.c [ 77%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -MF CMakeFiles/vdb-diff.dir/namelist_tools.c.o.d -o CMakeFiles/vdb-diff.dir/namelist_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/namelist_tools.c [ 77%] Built target meta-cmp make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/md5cp.dir/link.d CMakeFiles/md5cp.dir/md5cp.c.o -o ../../../bin/md5cp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f md5cp.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff-context.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv md5cp md5cp.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-copy.dir/link.d "CMakeFiles/meta-copy.dir/meta-copy.c.o" -o ../../../bin/meta-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-copy.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3.0.9 md5cp.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-copy meta-copy.3.0.9 [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3 md5cp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -MF CMakeFiles/vdb-diff.dir/cmn.c.o.d -o CMakeFiles/vdb-diff.dir/cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/cmn.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3.0.9 meta-copy.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3 meta-copy make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o [ 78%] Building C object tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -MF CMakeFiles/test-download.dir/test-download.c.o.d -o CMakeFiles/test-download.dir/test-download.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download/test-download.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o -MF CMakeFiles/kdb-index.dir/kdb-index.c.o.d -o CMakeFiles/kdb-index.dir/kdb-index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index/kdb-index.c [ 78%] Built target meta-copy [ 78%] Built target md5cp make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bio-end-makeinputs.dir/link.d "CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o" -o ../../../../../test-bin/bio-end-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -MF CMakeFiles/vdb-diff.dir/row_by_row.c.o.d -o CMakeFiles/vdb-diff.dir/row_by_row.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/row_by_row.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-loadxml.dir/link.d "CMakeFiles/pacbio-loadxml.dir/pstring.c.o" "CMakeFiles/pacbio-loadxml.dir/common-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/run-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-file.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o" "CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o" "CMakeFiles/pacbio-loadxml.dir/loader.c.o" "CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o" -o ../../../bin/pacbio-loadxml ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-loadxml.3.0.9 [ 78%] Linking C executable ../../../bin/pacbio-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-load.dir/link.txt --verbose=1 [ 78%] Built target bio-end-makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-loadxml pacbio-loadxml.3.0.9 make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/depend [ 78%] Linking C executable ../../../bin/test-read-write-cursor make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3.0.9 pacbio-loadxml.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-read-write-cursor.dir/link.txt --verbose=1 [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3 pacbio-loadxml cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -MF CMakeFiles/vdb-diff.dir/col_by_col.c.o.d -o CMakeFiles/vdb-diff.dir/col_by_col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/col_by_col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ccextract.dir/link.d CMakeFiles/ccextract.dir/ccextract.c.o -o ../../../bin/ccextract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libxml2.so make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ccextract.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ccextract ccextract.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3.0.9 ccextract.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3 ccextract make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o [ 78%] Building C object tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -MF CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o.d -o CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct/pacbio-correct.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build [ 78%] Built target ccextract make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/DependInfo.cmake "--color=" [ 78%] Linking CXX executable ../../../../../test-bin/idx-text-makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-makeinputs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -MF CMakeFiles/schema-replace.dir/schema-replace.c.o.d -o CMakeFiles/schema-replace.dir/schema-replace.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace/schema-replace.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 78%] Building C object tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o -MF CMakeFiles/sortreadtest.dir/sortreadtest.c.o.d -o CMakeFiles/sortreadtest.dir/sortreadtest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest/sortreadtest.c [ 78%] Building C object tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o -MF CMakeFiles/rowwritetest.dir/rowwritetest.c.o.d -o CMakeFiles/rowwritetest.dir/rowwritetest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest/rowwritetest.c [ 78%] Built target pacbio-loadxml make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util/CMakeFiles/samview-util.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-read-write-cursor.dir/link.d "CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o" -o ../../../bin/test-read-write-cursor /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-read-write-cursor.3.0.9 [ 78%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld/CMakeFiles/testld.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o -MF CMakeFiles/vdb-copy.dir/copy_meta.c.o.d -o CMakeFiles/vdb-copy.dir/copy_meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-read-write-cursor test-read-write-cursor.3.0.9 [ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb 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tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/DependInfo.cmake "--color=" [ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3 test-read-write-cursor [ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -MF CMakeFiles/vdb-copy.dir/type_matcher.c.o.d -o CMakeFiles/vdb-copy.dir/type_matcher.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/type_matcher.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection 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-DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -MF CMakeFiles/vdb-copy.dir/vdb-copy.c.o.d -o CMakeFiles/vdb-copy.dir/vdb-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 79%] Linking C executable ../../../bin/cg-load make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/cg-load.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory 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-I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -MF CMakeFiles/samview-util.dir/samview.c.o.d -o CMakeFiles/samview-util.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util/samview.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -MF CMakeFiles/testld.dir/testld.c.o.d -o CMakeFiles/testld.dir/testld.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld/testld.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb/CMakeFiles/test-vdb.dir/DependInfo.cmake "--color=" make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 81%] Building C object tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c:301:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 301 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o -MF CMakeFiles/txt2kdb.dir/txt2kdb.c.o.d -o CMakeFiles/txt2kdb.dir/txt2kdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb/txt2kdb.c [ 81%] Linking C executable ../../../bin/crc32sum make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/build cd 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o -MF CMakeFiles/test-vdb.dir/test-vdb.cpp.o.d -o CMakeFiles/test-vdb.dir/test-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb/test-vdb.cpp [ 81%] Linking C executable ../../../bin/copycat make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-correct.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-makeinputs.dir/link.d "CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o" -o ../../../../../test-bin/idx-text-makeinputs 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-I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o -MF CMakeFiles/sam-analyze.dir/main.cpp.o.d -o CMakeFiles/sam-analyze.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/main.cpp [ 81%] Linking C executable ../../../bin/make-read-filter make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/make-read-filter.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 81%] Linking C executable ../../../bin/sortreadtest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/sortreadtest.dir/link.txt --verbose=1 [ 81%] Building Java objects for test-ngs-java.jar [ 81%] Built target Build-align-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS [ 81%] Built target idx-text-makeinputs [ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp [ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 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executable ../../../bin/samview-util cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview-util.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_sources [ 81%] Building C object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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--verbose=1 make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/depend [ 81%] Linking C executable ../../../bin/schema-replace cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cmake -E cmake_link_script CMakeFiles/schema-replace.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/crc32sum.dir/link.d CMakeFiles/crc32sum.dir/crc32sum.c.o -o ../../../bin/crc32sum /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cg-load.dir/link.d "CMakeFiles/cg-load.dir/cg-load.c.o" "CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/factory-mappings.c.o" "CMakeFiles/cg-load.dir/factory-reads.c.o" "CMakeFiles/cg-load.dir/factory-tag-lfr.c.o" "CMakeFiles/cg-load.dir/f1_3.c.o" "CMakeFiles/cg-load.dir/f1_5.c.o" "CMakeFiles/cg-load.dir/f1_7.c.o" "CMakeFiles/cg-load.dir/f2_0.c.o" "CMakeFiles/cg-load.dir/f2_2.c.o" "CMakeFiles/cg-load.dir/f2_4.c.o" "CMakeFiles/cg-load.dir/f2_5.c.o" "CMakeFiles/cg-load.dir/file.c.o" "CMakeFiles/cg-load.dir/file-version-factory.c.o" "CMakeFiles/cg-load.dir/formats.c.o" "CMakeFiles/cg-load.dir/writer-algn.c.o" "CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/writer-seq.c.o" -o ../../../bin/cg-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f crc32sum.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cg-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cg-load cg-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv crc32sum crc32sum.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-redact.dir/link.d "CMakeFiles/check-redact.dir/check-redact.c.o" -o ../../../bin/check-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3.0.9 cg-load.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-load.dir/link.d "CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o" "CMakeFiles/pacbio-load.dir/pl-context.c.o" "CMakeFiles/pacbio-load.dir/pl-tools.c.o" "CMakeFiles/pacbio-load.dir/pl-zmw.c.o" "CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o" "CMakeFiles/pacbio-load.dir/pl-sequence.c.o" "CMakeFiles/pacbio-load.dir/pl-consensus.c.o" "CMakeFiles/pacbio-load.dir/pl-passes.c.o" "CMakeFiles/pacbio-load.dir/pl-metrics.c.o" "CMakeFiles/pacbio-load.dir/pl-regions.c.o" "CMakeFiles/pacbio-load.dir/pl-progress.c.o" "CMakeFiles/pacbio-load.dir/pacbio-load.c.o" -o ../../../bin/pacbio-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libpthread.a /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.a -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3.0.9 crc32sum.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3 cg-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-load pacbio-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3.0.9 pacbio-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-redact.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3 pacbio-load [ 81%] Linking C executable ../../../bin/read-filter-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3 crc32sum make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/read-filter-redact.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-redact check-redact.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/make-read-filter.dir/link.d "CMakeFiles/make-read-filter.dir/make-read-filter.c.o" -o ../../../bin/make-read-filter /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f make-read-filter.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3.0.9 check-redact.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-correct.dir/link.d "CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o" -o ../../../bin/pacbio-correct /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-correct.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdb-index.dir/link.d "CMakeFiles/kdb-index.dir/kdb-index.c.o" -o ../../../bin/kdb-index /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdb-index.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv make-read-filter make-read-filter.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-correct pacbio-correct.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-tool-args.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3 check-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdb-index kdb-index.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/copycat.dir/link.d CMakeFiles/copycat.dir/copycat.c.o CMakeFiles/copycat.dir/ccfileformat.c.o CMakeFiles/copycat.dir/cccat.c.o CMakeFiles/copycat.dir/cctree.c.o "CMakeFiles/copycat.dir/cctree-dump.c.o" CMakeFiles/copycat.dir/cctar.c.o CMakeFiles/copycat.dir/ccsra.c.o CMakeFiles/copycat.dir/ccsubchunk.c.o CMakeFiles/copycat.dir/ccfile.c.o CMakeFiles/copycat.dir/kff/fileformat.c.o CMakeFiles/copycat.dir/kff/ffext.c.o CMakeFiles/copycat.dir/kff/ffkey.c.o CMakeFiles/copycat.dir/kff/ffmagic.c.o -o ../../../bin/copycat /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libmagic.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3.0.9 kdb-index.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f copycat.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sortreadtest.dir/link.d CMakeFiles/sortreadtest.dir/sortreadtest.c.o -o ../../../bin/sortreadtest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 81%] Linking C executable ../../../bin/testld make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sortreadtest.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv copycat copycat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cmake -E cmake_link_script CMakeFiles/testld.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3 kdb-index make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sortreadtest sortreadtest.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3.0.9 copycat.3 [ 81%] Built target cg-load [ 81%] Built target crc32sum cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3.0.9 sortreadtest.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3 copycat make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3 sortreadtest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3.0.9 make-read-filter.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3.0.9 pacbio-correct.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/DependInfo.cmake "--color=" make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3 make-read-filter [ 81%] Built target pacbio-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3 pacbio-correct make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath/CMakeFiles/Build-srapath.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build [ 81%] Built target check-redact [ 81%] Linking C executable ../../../bin/test-download /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview-util.dir/link.d "CMakeFiles/samview-util.dir/samview.c.o" -o ../../../bin/samview-util /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 81%] Built target copycat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-download.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview-util.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/depend [ 81%] Built target kdb-index make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview-util samview-util.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/DependInfo.cmake "--color=" [ 82%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/build [ 82%] Built target sortreadtest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/srapath/CMakeFiles/Build-srapath.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3.0.9 samview-util.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/schema-replace.dir/link.d "CMakeFiles/schema-replace.dir/schema-replace.c.o" -o ../../../bin/schema-replace /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 82%] Built target Build-kdbmeta make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o [ 82%] Built target pacbio-correct cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f schema-replace.3.0.9 make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3 samview-util cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv schema-replace schema-replace.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build [ 82%] Built target make-read-filter [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3.0.9 schema-replace.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp [ 83%] Built target Build-srapath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3 schema-replace [ 83%] Building CXX object test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/depend [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -MF CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o.d -o CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch/test-quality.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-diff.dir/link.d "CMakeFiles/vdb-diff.dir/namelist_tools.c.o" "CMakeFiles/vdb-diff.dir/coldefs.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o" "CMakeFiles/vdb-diff.dir/cmn.c.o" "CMakeFiles/vdb-diff.dir/row_by_row.c.o" "CMakeFiles/vdb-diff.dir/col_by_col.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff.c.o" -o ../../../bin/vdb-diff /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/json-parse.cpp [ 83%] Built target Build-sra-stat make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-diff.3.0.9 make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-diff vdb-diff.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 83%] Built target Build-sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3.0.9 vdb-diff.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3 vdb-diff make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/DependInfo.cmake "--color=" make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build [ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 83%] Linking CXX executable ../../../bin/align-cache cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-cache.dir/link.txt --verbose=1 [ 83%] Built target samview-util make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/DependInfo.cmake "--color=" [ 83%] Built target schema-replace make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/read-filter-redact.dir/link.d "CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o" -o ../../../bin/read-filter-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f read-filter-redact.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv read-filter-redact read-filter-redact.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testld.dir/link.d CMakeFiles/testld.dir/testld.c.o -o ../../../bin/testld /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build [ 83%] Built target vdb-diff cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3.0.9 read-filter-redact.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build [ 84%] Linking C executable ../../../bin/rowwritetest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3 read-filter-redact make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cmake -E cmake_link_script CMakeFiles/rowwritetest.dir/link.txt --verbose=1 make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f testld.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 84%] Linking C executable ../../../bin/meta-repair [ 84%] Building CXX object test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-repair.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -MF CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o.d -o CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat/testAssemblyStatistics.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv testld testld.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build [ 84%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o [ 84%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3.0.9 testld.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp [ 84%] Linking C executable ../../../bin/txt2kdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/txt2kdb.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3 testld [ 84%] Building CXX object test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o [ 84%] Built target read-filter-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -MF CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o.d -o CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config-model.cpp make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-download.dir/link.d "CMakeFiles/test-download.dir/test-download.c.o" -o ../../../bin/test-download /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-download.3.0.9 [ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-spec.cpp [ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -MF CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o.d -o CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/makedb.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-download test-download.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3.0.9 test-download.3 [ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-alias.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3 test-download make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 84%] Built target testld make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 84%] Building CXX object test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -MF CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o.d -o CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate/test-vdb-validate.cpp [ 84%] Built target test-download make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-repair.dir/link.d "CMakeFiles/meta-repair.dir/meta-repair.c.o" -o ../../../bin/meta-repair /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-repair.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-repair meta-repair.3.0.9 [ 85%] Building CXX object test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -MF CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o.d -o CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/test-sra-info.cpp make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rowwritetest.dir/link.d CMakeFiles/rowwritetest.dir/rowwritetest.c.o -o ../../../bin/rowwritetest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3.0.9 meta-repair.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3 meta-repair cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rowwritetest.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rowwritetest rowwritetest.3.0.9 [ 85%] Built target Build-latf-load make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3.0.9 rowwritetest.3 make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/txt2kdb.dir/link.d CMakeFiles/txt2kdb.dir/txt2kdb.c.o -o ../../../bin/txt2kdb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/DependInfo.cmake "--color=" make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f txt2kdb.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv txt2kdb txt2kdb.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3 rowwritetest [ 86%] Linking CXX executable ../../../test-bin/SlowTest_Prefetch cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Prefetch.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3.0.9 txt2kdb.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3 txt2kdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 86%] Built target meta-repair make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build [ 86%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o [ 86%] Building CXX object test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -MF CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o.d -o CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-id2name.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/DependInfo.cmake "--color=" [ 86%] Built target rowwritetest /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-cache.dir/link.d "CMakeFiles/align-cache.dir/align-cache.cpp.o" "CMakeFiles/align-cache.dir/helper.cpp.o" -o ../../../bin/align-cache /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-cache.3.0.9 [ 87%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq-parse.cpp [ 87%] Built target txt2kdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-cache align-cache.3.0.9 make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3.0.9 align-cache.3 [ 87%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3 align-cache make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o [ 87%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o [ 87%] Linking CXX executable ../../../../test-bin/makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/makeinputs.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-fastq-loader.cpp [ 87%] Built target align-cache make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Prefetch.dir/link.d "CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o" -o ../../../test-bin/SlowTest_Prefetch /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Linking C executable ../../../bin/vdb-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-copy.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Built target SlowTest_Prefetch make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/depend [ 87%] Building C object test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -MF CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o.d -o CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/qfiletest.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -MF CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o.d -o CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/test-loaderfile.cpp [ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c [ 88%] Linking CXX executable ../../../bin/sra-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-info.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/makeinputs.dir/link.d CMakeFiles/makeinputs.dir/makeinputs.cpp.o CMakeFiles/makeinputs.dir/testsource.cpp.o -o ../../../../test-bin/makeinputs ../../../../ilib/libgeneral-writer.a -lncbi-vdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-copy.dir/link.d "CMakeFiles/vdb-copy.dir/context.c.o" "CMakeFiles/vdb-copy.dir/helper.c.o" "CMakeFiles/vdb-copy.dir/coldefs.c.o" "CMakeFiles/vdb-copy.dir/get_platform.c.o" "CMakeFiles/vdb-copy.dir/copy_meta.c.o" "CMakeFiles/vdb-copy.dir/type_matcher.c.o" "CMakeFiles/vdb-copy.dir/redactval.c.o" "CMakeFiles/vdb-copy.dir/config_values.c.o" "CMakeFiles/vdb-copy.dir/vdb-copy.c.o" -o ../../../bin/vdb-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-copy vdb-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3.0.9 vdb-copy.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3 vdb-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/vdb-copy.kfg [ 88%] Linking CXX executable ../../../bin/general-loader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-loader.dir/link.txt --verbose=1 [ 88%] Built target makeinputs make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADER.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp:38: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 88%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o [ 88%] Linking C executable ../../../test-bin/Test_KAPP_qfile cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -MF CMakeFiles/Test_LOADER.dir/loadertest.cpp.o.d -o CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KAPP_qfile.dir/link.txt --verbose=1 In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 88%] Built target vdb-copy make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/Test_Align_samextract.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KAPP_qfile.dir/link.d CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -o ../../../test-bin/Test_KAPP_qfile ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:307:117: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 307 | REQUIRE_RC ( KLoaderMeta_Write ( node, LoaderName.c_str(), __DATE__, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:321:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 321 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:350:143: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 350 | REQUIRE_RC ( KLoaderMeta_WriteWithVersion ( node, LoaderName.c_str(), __DATE__, LoaderVersion, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:364:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 364 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ [ 88%] Building CXX object test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -MF CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o.d -o CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/test-samextract.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/general-loader.dir/link.d "CMakeFiles/general-loader.dir/general-loader.cpp.o" "CMakeFiles/general-loader.dir/protocol-parser.cpp.o" "CMakeFiles/general-loader.dir/database-loader.cpp.o" "CMakeFiles/general-loader.dir/main.cpp.o" -o ../../../bin/general-loader ../../../ilib/libgeneral-writer.a ../../../ilib/libloader.a -lkapp ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 88%] Built target Test_KAPP_qfile cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f general-loader.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv general-loader general-loader.3.0.9 make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3.0.9 general-loader.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3 general-loader make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Linking CXX executable ../../../bin/sratools cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/sratools.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-info.dir/link.d "CMakeFiles/sra-info.dir/main.cpp.o" "CMakeFiles/sra-info.dir/sra-info.cpp.o" "CMakeFiles/sra-info.dir/formatter.cpp.o" -o ../../../bin/sra-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-info.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache/CMakeFiles/Build-align-cache.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-info sra-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3.0.9 sra-info.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3 sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build [ 88%] Built target general-loader make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Build-copycat.dir/DependInfo.cmake "--color=" [ 88%] Built target Build-align-cache [ 88%] Linking CXX executable ../../../test-bin/vdb-dump-makedb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump-makedb.dir/link.txt --verbose=1 [ 88%] Built target sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/depend make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Test_KFF.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/DependInfo.cmake "--color=" make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o make[3]: Nothing to be done for 'test/internal/copycat/CMakeFiles/Build-copycat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target Build-copycat make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o [ 88%] Building CXX object test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o -MF CMakeFiles/Test_KFF.dir/kfftest.cpp.o.d -o CMakeFiles/Test_KFF.dir/kfftest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/kfftest.cpp [ 88%] Built target Build-make-read-filter make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/DependInfo.cmake "--color=" In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:113: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:214:7: warning: 'sha1_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 214 | class sha1_filter : public sha_filter | ^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:218:7: warning: 'sha224_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 218 | class sha224_filter : public sha_filter | ^~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:222:7: warning: 'sha256_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 222 | class sha256_filter : public sha_filter | ^~~~~~~~~~~~~ [ 88%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target Build-read-filter-redact make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/DependInfo.cmake "--color=" [ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump-makedb.dir/link.d "CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o" -o ../../../test-bin/vdb-dump-makedb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target vdb-dump-makedb make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/depend [ 89%] Built target Build-vdb-copy [ 89%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sratools.dir/link.d CMakeFiles/sratools.dir/sratools.cpp.o CMakeFiles/sratools.dir/config.cpp.o "CMakeFiles/sratools.dir/command-line.cpp.o" "CMakeFiles/sratools.dir/run-source.cpp.o" CMakeFiles/sratools.dir/proc.cpp.o CMakeFiles/sratools.dir/uuid.cpp.o CMakeFiles/sratools.dir/accession.cpp.o CMakeFiles/sratools.dir/service.cpp.o "CMakeFiles/sratools.dir/json-parse.cpp.o" "CMakeFiles/sratools.dir/SDL-response.cpp.o" "CMakeFiles/sratools.dir/tool-args.cpp.o" "CMakeFiles/sratools.dir/build-version.cpp.o" "CMakeFiles/sratools.dir/file-path.posix.cpp.o" CMakeFiles/sratools.dir/proc.posix.cpp.o -o ../../../bin/sratools /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sratools.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 89%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-alias cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sratools sratools.3.0.9 [ 89%] Building CXX object ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-alias.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-c++\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -MF CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o.d -o CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++/NCBI-NGS.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sratools.3 [ 89%] Built target Build-vdb-diff cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3 sratools make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/DependInfo.cmake "--color=" [ 89%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c [ 89%] Built target sratools make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-doc.jar\ . make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-src.jar\ \ ngs/ErrorMsg.java\ ngs/Statistics.java\ ngs/Fragment.java\ ngs/FragmentIterator.java\ ngs/Read.java\ ngs/ReadIterator.java\ ngs/ReadGroup.java\ ngs/ReadGroupIterator.java\ ngs/Alignment.java\ ngs/AlignmentIterator.java\ ngs/PileupEvent.java\ ngs/PileupEventIterator.java\ ngs/Pileup.java\ ngs/PileupIterator.java\ ngs/Reference.java\ ngs/ReferenceIterator.java\ ngs/ReadCollection.java\ ngs/Package.java\ ngs/itf/Refcount.java\ ngs/itf/StatisticsItf.java\ ngs/itf/FragmentItf.java\ ngs/itf/FragmentIteratorItf.java\ ngs/itf/ReadItf.java\ ngs/itf/ReadIteratorItf.java\ ngs/itf/ReadGroupItf.java\ ngs/itf/ReadGroupIteratorItf.java\ ngs/itf/AlignmentItf.java\ ngs/itf/AlignmentIteratorItf.java\ ngs/itf/PileupEventItf.java\ ngs/itf/PileupEventIteratorItf.java\ ngs/itf/PileupItf.java\ ngs/itf/PileupIteratorItf.java\ ngs/itf/ReferenceItf.java\ ngs/itf/ReferenceIteratorItf.java\ ngs/itf/ReadCollectionItf.java\ gov/nih/nlm/ncbi/ngs/DownloadManager.java\ gov/nih/nlm/ncbi/ngs/FileCreator.java\ gov/nih/nlm/ncbi/ngs/HttpManager.java\ gov/nih/nlm/ncbi/ngs/LibDependencies.java\ gov/nih/nlm/ncbi/ngs/LibManager.java\ gov/nih/nlm/ncbi/ngs/LibPathIterator.java\ gov/nih/nlm/ncbi/ngs/LibVersionChecker.java\ gov/nih/nlm/ncbi/ngs/LMProperties.java\ gov/nih/nlm/ncbi/ngs/Logger.java\ gov/nih/nlm/ncbi/ngs/Manager.java\ gov/nih/nlm/ncbi/ngs/NGS.java\ gov/nih/nlm/ncbi/ngs/Version.java\ gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java\ gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/DependInfo.cmake "--color=" make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/gw-dumper.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building Java objects for ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test/CMakeFiles/test-general-writer.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_sources make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/depend [ 90%] Building CXX object libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch/CMakeFiles/prefetch.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -MF CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o.d -o CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/gw-dumper.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o [ 90%] Building CXX object libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o -MF CMakeFiles/prefetch.dir/kfile-no-q.c.o.d -o CMakeFiles/prefetch.dir/kfile-no-q.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/kfile-no-q.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -MF CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o.d -o CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/fmt.h:24, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = fmt::v8::basic_string_view; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {fmt::v8::basic_string_view, char [3]}]' 1692 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1693 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1694 | detail::mapped_type_constant::value>(args)...} { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'OutputIt fmt::v8::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1710 | return {args...}; | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/format-inl.h:74:14: required from here 74 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:2915:52: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(((const fmt::v8::basic_string_view&)args#0), args#1)' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1566 | const auto& arg = arg_mapper().map(val); | ^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/CMakeFiles/vdb-config.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o -MF CMakeFiles/vdb-config.dir/configure.cpp.o.d -o CMakeFiles/vdb-config.dir/configure.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/configure.cpp make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Build-sra-info.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-alias.dir/link.d "CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o" -o ../../../test-bin/Test_Vdb_dump_view-alias /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Built target Test_Vdb_dump_view-alias make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-info/CMakeFiles/Build-sra-info.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 91%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -MF CMakeFiles/prefetch.dir/PrfMain.c.o.d -o CMakeFiles/prefetch.dir/PrfMain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfMain.c [ 91%] Built target Build-sra-info [ 91%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o -MF CMakeFiles/vdb-config.dir/util.cpp.o.d -o CMakeFiles/vdb-config.dir/util.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/util.cpp [ 91%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o -MF CMakeFiles/prefetch.dir/prefetch.c.o.d -o CMakeFiles/prefetch.dir/prefetch.c.o -c 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-Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o -MF CMakeFiles/vdb-config.dir/vdb-config.c.o.d -o CMakeFiles/vdb-config.dir/vdb-config.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config.c [ 92%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o -MF CMakeFiles/vdb-config.dir/interactive2.cpp.o.d -o CMakeFiles/vdb-config.dir/interactive2.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/interactive2.cpp [ 92%] Linking CXX executable ../../../test-bin/testAssemblyStatistics cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAssemblyStatistics.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -MF CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o.d -o CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config-model.cpp [ 92%] Built target ngs-src-jar make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o -MF CMakeFiles/prefetch.dir/PrfRetrier.c.o.d -o CMakeFiles/prefetch.dir/PrfRetrier.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfRetrier.c [ 92%] Built target ngs-doc-jar [ 92%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o -MF CMakeFiles/prefetch.dir/PrfOutFile.c.o.d -o CMakeFiles/prefetch.dir/PrfOutFile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfOutFile.c [ 92%] Linking CXX static library ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -P CMakeFiles/ncbi-ngs-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-c++.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../lib/libncbi-ngs-c++.a "CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" /usr/bin/ranlib ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs-c++.a libncbi-ngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3.0.9 libncbi-ngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3 libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a libncbi-ngs-c++-static.a /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testAssemblyStatistics.dir/link.d CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -o ../../../test-bin/testAssemblyStatistics /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target ncbi-ngs-c++ make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/depend make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/DependInfo.cmake "--color=" [ 92%] Built target testAssemblyStatistics make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Linking CXX shared library ../../lib/libngs-c++.so [ 92%] Linking CXX static library ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++-shared.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ngs-c++.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Linking CXX static library ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ncbi-ngs.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,--dependency-file,CMakeFiles/ngs-c++-shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libngs-c++.so.3 -o ../../lib/libngs-c++.so.3.0.9 "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" 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"language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadColleir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libngs-c++.a libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3.0.9 libngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3 libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a libngs-c++-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target ngs-c++ make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/depend make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/DependInfo.cmake "--color=" /NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libngs-c++.so.3.0.9 ../../lib/libngs-c++.so.3 ../../lib/libngs-c++.so make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' ction.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs.a.3.0.9 [ 93%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -MF CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o.d -o CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs.a libncbi-ngs.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3.0.9 libncbi-ngs.a.3 [ 93%] Building CXX object test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3 libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -MF CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o.d -o CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup/test-ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a libncbi-ngs-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target ncbi-ngs make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/DependInfo.cmake "--color=" [ 93%] Built target ngs-c++-shared make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -MF CMakeFiles/ngs-pileup.dir/main.cpp.o.d -o CMakeFiles/ngs-pileup.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/main.cpp [ 93%] Linking CXX executable ../../../test-bin/Test_KFF cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFF.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build [ 93%] Building CXX object test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -MF CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o.d -o CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/pileup_estimator.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -MF CMakeFiles/FragTest.dir/FragTest.cpp.o.d -o CMakeFiles/FragTest.dir/FragTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/FragTest.cpp Files/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libncbi-ngs.so.3.0.9 ../../lib/libncbi-ngs.so.3 ../../lib/libncbi-ngs.so make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target ncbi-ngs-shared make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp: In function 'void ncbi::runTest(int, const char**, const char*, const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:271:20: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 271 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:217:24: note: 'gw' was declared here 217 | GeneralWriter *gw; | ^~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KFF.dir/link.d CMakeFiles/Test_KFF.dir/kfftest.cpp.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -o ../../../test-bin/Test_KFF /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmagic make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o -MF CMakeFiles/AlignTest.dir/AlignTest.cpp.o.d -o CMakeFiles/AlignTest.dir/AlignTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignTest.cpp [ 93%] Built target Test_KFF make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/DependInfo.cmake "--color=" [ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -MF CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o.d -o CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignSliceTest.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/DependInfo.cmake "--color=" [ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o -MF CMakeFiles/PileupTest.dir/PileupTest.cpp.o.d -o CMakeFiles/PileupTest.dir/PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/PileupTest.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o -MF CMakeFiles/RefTest.dir/RefTest.cpp.o.d -o CMakeFiles/RefTest.dir/RefTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/RefTest.cpp [ 94%] Linking CXX executable ../../../test-bin/SlowTest_FastqLoader_id2name cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/Test_LOADERFILE cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADERFILE.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/Test_Drivertool_ToolArgs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_ToolArgs.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/Test_VdbValidate_Unit cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VdbValidate_Unit.dir/link.txt --verbose=1 [ 94%] Linking CXX executable ../../../test-bin/test-general-writer cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-writer.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.d "CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o" -o ../../../test-bin/SlowTest_FastqLoader_id2name ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target SlowTest_FastqLoader_id2name make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADERFILE.dir/link.d "CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o" -o ../../../test-bin/Test_LOADERFILE ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target Test_LOADERFILE [ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_VdbValidate_Unit.dir/link.d "CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o" -o ../../../test-bin/Test_VdbValidate_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 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make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target Test_Drivertool_ToolArgs [ 94%] Built target Test_VdbValidate_Unit make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/depend [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o -MF CMakeFiles/test-ngs.dir/ngstest.cpp.o.d -o CMakeFiles/test-ngs.dir/ngstest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest.cpp [ 94%] Linking CXX executable ../../../test-bin/FragTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragTest.dir/link.txt --verbose=1 [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -MF CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o.d -o CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sra.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-writer.dir/link.d "CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o" -o ../../../test-bin/test-general-writer ../../../ilib/libgeneral-writer.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o [ 94%] Built target test-general-writer cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -MF CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o.d -o CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sradb.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/depend [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -MF CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o.d -o CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -MF CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o.d -o CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_readcollection.cpp [ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -MF CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o.d -o CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Linking CXX executable ../../../test-bin/Test_LOADER cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADER.dir/link.txt --verbose=1 [ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -MF CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o.d -o CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_pileup.cpp [ 95%] Linking CXX executable ../../../test-bin/AlignTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignTest.dir/link.txt --verbose=1 [ 95%] Linking CXX executable ../../../test-bin/RefTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/RefTest.dir/link.txt --verbose=1 Note: ngs_test_lib_load.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/FragTest.dir/link.d CMakeFiles/FragTest.dir/FragTest.cpp.o -o ../../../test-bin/FragTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target FragTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADER.dir/link.d CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -o ../../../test-bin/Test_LOADER ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_compiled_test-ngs-java [ 95%] Built target Test_LOADER make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/DependInfo.cmake "--color=" [ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -MF CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o.d -o CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_reference.cpp [ 95%] Linking CXX executable ../../../test-bin/AlignSliceTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignSliceTest.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Linking CXX executable ../../../test-bin/PileupTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/PileupTest.dir/link.txt --verbose=1 [ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o [ 95%] Generating CMakeFiles/test-ngs-java.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -MF CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o.d -o CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_fragmentblob.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/DependInfo.cmake "--color=" [ 96%] Creating Java archive test-ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar @java_class_filelist /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignTest.dir/link.d CMakeFiles/AlignTest.dir/AlignTest.cpp.o -o ../../../test-bin/AlignTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/RefTest.dir/link.d CMakeFiles/RefTest.dir/RefTest.cpp.o -o ../../../test-bin/RefTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Linking CXX executable ../../../test-bin/DumpReferenceFASTA [ 96%] Built target RefTest make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/DumpReferenceFASTA.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../test-bin/test-ngs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs.dir/link.txt --verbose=1 [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o [ 96%] Built target AlignTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -MF CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o.d -o CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_referenceblob.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -MF CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o.d -o CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_byteblob.cpp [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -MF CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o.d -o CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRAtest.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignSliceTest.dir/link.d CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -o ../../../test-bin/AlignSliceTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target AlignSliceTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/PileupTest.dir/link.d CMakeFiles/PileupTest.dir/PileupTest.cpp.o -o ../../../test-bin/PileupTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -MF CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o.d -o CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRADBtest.cpp [ 96%] Built target PileupTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceWindow_Slice_Filtered::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:591:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 591 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/DumpReferenceFASTA.dir/link.d CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -o ../../../test-bin/DumpReferenceFASTA ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:669:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 669 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:696:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 696 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs.dir/link.d "CMakeFiles/test-ngs.dir/ngstest.cpp.o" -o ../../../test-bin/test-ngs -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:719:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 719 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:740:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 740 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target DumpReferenceFASTA [ 96%] Built target test-ngs make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/DependInfo.cmake "--color=" [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -MF CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o.d -o CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1test.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_compiled_ngs-examples make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -MF CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o.d -o CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1PileupTest.cpp [ 96%] Linking C executable ../../../bin/prefetch [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/prefetch.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -MF CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o.d -o CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/test-ngs-vdb.cpp [ 96%] Generating CMakeFiles/ngs-examples.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=test-ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake [ 96%] Creating Java archive ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-examples.jar @java_class_filelist make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target test-ngs-java make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/ref-variation.dir/DependInfo.cmake "--color=" [ 96%] Linking CXX executable ../../../bin/ngs-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-pileup.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/prefetch.dir/link.d "CMakeFiles/prefetch.dir/kfile-no-q.c.o" CMakeFiles/prefetch.dir/PrfMain.c.o CMakeFiles/prefetch.dir/prefetch.c.o CMakeFiles/prefetch.dir/PrfRetrier.c.o CMakeFiles/prefetch.dir/PrfOutFile.c.o -o ../../../bin/prefetch ../../../ilib/libascp.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f prefetch.3.0.9 [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -MF CMakeFiles/ref-variation.dir/common.cpp.o.d -o CMakeFiles/ref-variation.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv prefetch prefetch.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3.0.9 prefetch.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3 prefetch cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 prefetch-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target prefetch make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/var-expand.dir/DependInfo.cmake "--color=" make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/CMakeFiles/sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -MF CMakeFiles/var-expand.dir/common.cpp.o.d -o CMakeFiles/var-expand.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -MF CMakeFiles/sra-search.dir/main.cpp.o.d -o CMakeFiles/sra-search.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-examples.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target ngs-examples make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-pileup.dir/link.d "CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o" "CMakeFiles/ngs-pileup.dir/main.cpp.o" -o ../../../bin/ngs-pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ngs-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ngs-pileup ngs-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3.0.9 ngs-pileup.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3 ngs-pileup make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -MF CMakeFiles/ref-variation.dir/helper.cpp.o.d -o CMakeFiles/ref-variation.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -MF CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search.cpp [ 96%] Built target ngs-pileup [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -MF CMakeFiles/ref-variation.dir/ref-variation.cpp.o.d -o CMakeFiles/ref-variation.dir/ref-variation.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/ref-variation.cpp [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -MF CMakeFiles/var-expand.dir/helper.cpp.o.d -o CMakeFiles/var-expand.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp [ 96%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-spec cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-spec.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = std::__cxx11::basic_string; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, spdlog::stopwatch, long unsigned int}]' 1692 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1693 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1694 | detail::mapped_type_constant::value>(args)...} { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'void spdlog::logger::log_(spdlog::source_loc, spdlog::level::level_enum, spdlog::string_view_t, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; spdlog::string_view_t = fmt::v8::basic_string_view]' 1710 | return {args...}; | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:90:13: required from 'void spdlog::logger::log(spdlog::source_loc, spdlog::level::level_enum, fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 90 | log_(loc, lvl, fmt, std::forward(args)...); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:96:12: required from 'void spdlog::logger::log(spdlog::level::level_enum, fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 96 | log(source_loc{}, lvl, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:158:12: required from 'void spdlog::logger::info(fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 158 | log(level::info, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/spdlog.h:157:31: required from 'void spdlog::info(fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, stopwatch&, long unsigned int>]' 157 | default_logger_raw()->info(fmt, std::forward(args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/spot_assembly.hpp:386:21: required from here 386 | spdlog::info("{} Batch insert: {:.3}, {:L} reads", batch_idx, sw, new_batch.m_spot_map->size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:370:68: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(args#0, ((const spdlog::stopwatch&)args#1), ((const long unsigned int&)args#2))' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1566 | const auto& arg = arg_mapper().map(val); | ^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ [ 96%] Linking CXX executable ../../../test-bin/Test_Align_samextract cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Align_samextract.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-spec.dir/link.d "CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o" -o ../../../test-bin/Test_Vdb_dump_view-spec /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_Vdb_dump_view-spec [ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -MF CMakeFiles/var-expand.dir/var-expand.cpp.o.d -o CMakeFiles/var-expand.dir/var-expand.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/var-expand.cpp [ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqLoader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Align_samextract.dir/link.d "CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o" -o ../../../test-bin/Test_Align_samextract -lsam-extract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_Align_samextract [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -MF CMakeFiles/sra-search.dir/searchblock.cpp.o.d -o CMakeFiles/sra-search.dir/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqLoader ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 96%] Built target Test_FastqLoader_WbFastqLoader [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp [ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqParse cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.txt --verbose=1 [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqParse ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 96%] Built target Test_FastqLoader_WbFastqParse [ 96%] Linking CXX executable ../../bin/gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/gw-dumper.dir/link.txt --verbose=1 [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 96%] Linking CXX executable ../../../bin/vdb-config cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-config.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../test-bin/Test_Drivertool_FilePath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_FilePath.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/gw-dumper.dir/link.d "CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o" -o ../../bin/gw-dumper ../../ilib/libgeneral-writer.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target gw-dumper [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -MF CMakeFiles/sra-search.dir/referencematchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 96%] Linking CXX executable ../../../bin/var-expand cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/var-expand.dir/link.txt --verbose=1 make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search-slow.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_FilePath.dir/link.d "CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o" -o ../../../test-bin/Test_Drivertool_FilePath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target Test_Drivertool_FilePath /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-config.dir/link.d "CMakeFiles/vdb-config.dir/configure.cpp.o" "CMakeFiles/vdb-config.dir/util.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config.c.o" "CMakeFiles/vdb-config.dir/interactive2.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o" -o ../../../bin/vdb-config ../../../ilib/libtui_cpp.a ../../../ilib/libtui.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-config.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-config vdb-config.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3.0.9 vdb-config.3 [ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3 vdb-config cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -MF CMakeFiles/sra-search.dir/vdb-search.cpp.o.d -o CMakeFiles/sra-search.dir/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E copy /usr/include/ncbi-vdb/kfg/ncbi/default.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/default.kfg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Linking CXX executable ../../../test-bin/SlowTest_Align_estimator cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Align_estimator.dir/link.txt --verbose=1 [ 96%] Built target vdb-config make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-searchblock.cpp [ 97%] Linking CXX executable ../../../test-bin/test-vdb-config-model cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb-config-model.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/var-expand.dir/link.d "CMakeFiles/var-expand.dir/common.cpp.o" "CMakeFiles/var-expand.dir/helper.cpp.o" "CMakeFiles/var-expand.dir/var-expand.cpp.o" -o ../../../bin/var-expand ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f var-expand.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv var-expand var-expand.3.0.9 make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/DependInfo.cmake "--color=" [ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3.0.9 var-expand.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3 var-expand [ 97%] Linking CXX executable ../../../test-bin/Test_Ngs_Pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Ngs_Pileup.dir/link.txt --verbose=1 make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target var-expand make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/Build-prefetch.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build [ 97%] Building CXX object tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -MF CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o.d -o CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats/pileup-stats.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/prefetch/CMakeFiles/Build-prefetch.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/ngs/testy-the-bear\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -MF CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o.d -o CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear/testy-the-bear.cpp [ 97%] Built target Build-ngs-pileup [ 97%] Built target Build-prefetch [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp [ 98%] Linking CXX executable ../../../bin/sam-factory cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-factory.dir/link.txt --verbose=1 [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Align_estimator.dir/link.d CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -o ../../../test-bin/SlowTest_Align_estimator ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target SlowTest_Align_estimator make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb-config-model.dir/link.d "CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o" -o ../../../test-bin/test-vdb-config-model /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Ngs_Pileup.dir/link.d "CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o" -o ../../../test-bin/Test_Ngs_Pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-vdb-config-model make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar/CMakeFiles/Build-kar.dir/DependInfo.cmake "--color=" [ 98%] Built target Test_Ngs_Pileup [ 98%] Built target Build-vdb-config [ 98%] Built target Build-vdb-validate [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/kar/CMakeFiles/Build-kar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o [ 98%] Built target Build-kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-factory.dir/link.d "CMakeFiles/sam-factory.dir/sam-factory.cpp.o" -o ../../../bin/sam-factory /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target sam-factory [ 98%] Linking CXX executable ../../../../test-bin/testy-the-bear cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/cmake -E cmake_link_script CMakeFiles/testy-the-bear.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../test-bin/Test_Drivertool_RunSource cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_RunSource.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testy-the-bear.dir/link.d "CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o" -o ../../../../test-bin/testy-the-bear /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a ../../../../lib/libncbi-ngs-c++.a ../../../../lib/libncbi-ngs.a ../../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target testy-the-bear [ 98%] Linking CXX executable ../../../test-bin/test-byteblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-byteblob.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../test-bin/test-vdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_RunSource.dir/link.d "CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" -o ../../../test-bin/Test_Drivertool_RunSource /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target Test_Drivertool_RunSource [ 98%] Linking CXX executable ../../../bin/ref-variation cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/ref-variation.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-byteblob.dir/link.d "CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o" -o ../../../test-bin/test-byteblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-byteblob /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb.dir/link.d "CMakeFiles/test-vdb.dir/test-vdb.cpp.o" -o ../../test-bin/test-vdb -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-vdb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ref-variation.dir/link.d "CMakeFiles/ref-variation.dir/common.cpp.o" "CMakeFiles/ref-variation.dir/helper.cpp.o" "CMakeFiles/ref-variation.dir/ref-variation.cpp.o" -o ../../../bin/ref-variation ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ref-variation ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3.0.9 ref-variation.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3 ref-variation make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target ref-variation [ 98%] Linking CXX executable ../../../bin/pileup-stats cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pileup-stats.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../bin/sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-search.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pileup-stats.dir/link.d "CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o" -o ../../../bin/pileup-stats ../../../ilib/libgeneral-writer.a ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pileup-stats pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3.0.9 pileup-stats.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3 pileup-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target pileup-stats [ 98%] Linking CXX executable ../../../test-bin/test-fragmentblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-fragmentblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-search.dir/link.d "CMakeFiles/sra-search.dir/main.cpp.o" "CMakeFiles/sra-search.dir/searchblock.cpp.o" "CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/referencematchiterator.cpp.o" "CMakeFiles/sra-search.dir/vdb-search.cpp.o" -o ../../../bin/sra-search ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libtk-version.a -Wl,-Bstatic -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-search sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3.0.9 sra-search.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3 sra-search make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target sra-search make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target Build-sra-search /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-fragmentblob.dir/link.d "CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o" -o ../../../test-bin/test-fragmentblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-fragmentblob [ 98%] Linking CXX executable ../../../../test-bin/test-searchblock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-searchblock.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1pileup++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1pileup++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-searchblock.dir/link.d "CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o" "CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o" -o ../../../../test-bin/test-searchblock ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-searchblock /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1pileup++.dir/link.d "CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o" -o ../../../test-bin/test-ngs_csra1pileup++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Linking CXX executable ../../../../test-bin/test-sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search.dir/link.txt --verbose=1 [ 98%] Built target test-ngs_csra1pileup++ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search.dir/link.d "CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-sra-search [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_pileup.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_pileup.dir/link.d "CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o" -o ../../../test-bin/test-ngs_csra1_pileup -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1_pileup [ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_refwin cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_refwin.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../../test-bin/test-sra-search-slow /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_refwin.dir/link.d "CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o" -o ../../../test-bin/test-ngs_csra1_refwin -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search-slow.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_csra1_refwin [ 98%] Linking CXX executable ../../../test-bin/test-ngs-vdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search-slow.dir/link.d "CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search-slow ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sra_c++ [ 98%] Built target test-sra-search-slow cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs-vdb.dir/link.d "CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o" -o ../../../test-bin/test-ngs-vdb ../../../ilib/libtk-version.a ../../../ilib/libngs-vdb.a -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs-vdb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra_c++.dir/link.d "CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o" -o ../../../test-bin/test-ngs_sra_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sra_c++ [ 98%] Linking CXX executable ../../../test-bin/test-referenceblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-referenceblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-referenceblob.dir/link.d "CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o" -o ../../../test-bin/test-referenceblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-referenceblob [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sradb_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb_c++.dir/link.d "CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o" -o ../../../test-bin/test-ngs_sradb_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sradb_c++ [ 99%] Linking CXX executable ../../../test-bin/test-ngs_reference cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_reference.dir/link.txt --verbose=1 [ 99%] Linking CXX executable ../../../test-bin/Test_SraInfo_Unit cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraInfo_Unit.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_reference.dir/link.d "CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o" -o ../../../test-bin/test-ngs_reference -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_SraInfo_Unit.dir/link.d "CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o" -o ../../../test-bin/Test_SraInfo_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_reference [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_readcollection cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_readcollection.dir/link.txt --verbose=1 [ 99%] Built target Test_SraInfo_Unit /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_readcollection.dir/link.d "CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o" -o ../../../test-bin/test-ngs_csra1_readcollection -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1_readcollection [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sradb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb.dir/link.d "CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o" -o ../../../test-bin/test-ngs_sradb -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sradb /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3SelectNew': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115649:10: warning: function may return address of local variable [-Wreturn-local-addr] 115649 | return pNew; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115609:10: note: declared here 115609 | Select standin; | ^~~~~~~ [ 99%] Linking CXX executable ../../../../test-bin/test-general-loader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-loader.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-loader.dir/link.d "CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o" "CMakeFiles/test-general-loader.dir/testsource.cpp.o" -o ../../../../test-bin/test-general-loader ../../../../ilib/libgeneral-writer.a -lkapp -lktst ../../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-general-loader [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sra cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra.dir/link.d "CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o" -o ../../../test-bin/test-ngs_sra -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sra [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1.dir/link.txt --verbose=1 [ 99%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastq_dflt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1.dir/link.d "CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o" -o ../../../test-bin/test-ngs_csra1 -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastq_dflt ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target Test_FastqLoader_WbFastq_dflt /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3VdbeExpandSql': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_c++.dir/link.d "CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o" -o ../../../test-bin/test-ngs_csra1_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1_c++ [ 99%] Linking C static library ../../ilib/libvdb-sqlite.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -P CMakeFiles/vdb-sqlite.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sqlite.dir/link.txt --verbose=1 /usr/bin/ar qc ../../ilib/libvdb-sqlite.a "CMakeFiles/vdb-sqlite.dir/sqlite3.c.o" "CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o" /usr/bin/ranlib ../../ilib/libvdb-sqlite.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target vdb-sqlite make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/depend make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/fastconv.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o -MF CMakeFiles/fastconv.dir/fastconv.c.o.d -o CMakeFiles/fastconv.dir/fastconv.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/fastconv.c [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o -MF CMakeFiles/vdb-sql.dir/vdb_shell.c.o.d -o CMakeFiles/vdb-sql.dir/vdb_shell.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/vdb_shell.c [ 99%] Linking C executable ../../../bin/fastconv cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastconv.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastconv.dir/link.d CMakeFiles/fastconv.dir/fastconv.c.o -o ../../../bin/fastconv /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastconv.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastconv fastconv.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3.0.9 fastconv.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3 fastconv make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target fastconv [100%] Linking C executable ../../../bin/vdb-sql cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sql.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-sql.dir/link.d "CMakeFiles/vdb-sql.dir/vdb_shell.c.o" -o ../../../bin/vdb-sql ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-sql.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-sql vdb-sql.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3.0.9 vdb-sql.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3 vdb-sql make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target vdb-sql [100%] Linking CXX executable ../../../bin/bam-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam-load.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bam-load.dir/link.d "CMakeFiles/bam-load.dir/bam-loader.c.o" "CMakeFiles/bam-load.dir/bam.c.o" "CMakeFiles/bam-load.dir/sam.c.o" "CMakeFiles/bam-load.dir/alignment-writer.c.o" "CMakeFiles/bam-load.dir/reference-writer.c.o" "CMakeFiles/bam-load.dir/sequence-writer.c.o" "CMakeFiles/bam-load.dir/loader-imp.c.o" "CMakeFiles/bam-load.dir/mem-bank.cpp.o" "CMakeFiles/bam-load.dir/low-match-count.cpp.o" -o ../../../bin/bam-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lz cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f bam-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv bam-load bam-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3.0.9 bam-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3 bam-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target bam-load make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/depend make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/depend make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/depend make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target Build-sra-sort [100%] Built target Build-bam-load [100%] Built target Build-sam-dump [100%] Built target Build-fasterq-dump [100%] Linking CXX executable ../../../bin/sam-analyze cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-analyze.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-analyze.dir/link.d "CMakeFiles/sam-analyze.dir/main.cpp.o" "CMakeFiles/sam-analyze.dir/sqlite3.c.o" -o ../../../bin/sam-analyze /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target sam-analyze make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' cd obj-x86_64-linux-gnu && \ ctest --force-new-ctest-process --verbose -j1 -LE online UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 9 Start 9: Test_NGS_Python_install 9: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-python/setup.py" "-q" "install" "--user" 9: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-python 9: Environment variables: 9: PYTHONUSERBASE=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/python 9: Test timeout computed to be: 1500 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` directly. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` and ``easy_install``. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://github.com/pypa/setuptools/issues/917 for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: build/bdist.linux-x86_64/egg/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' 9: arr = re.split('\.\s*|\-\s*|\s+', version_str) 9: zip_safe flag not set; analyzing archive contents... 1/187 Test #9: Test_NGS_Python_install ........................... Passed 0.74 sec test 15 Start 15: Ngs_MakeDB 15: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/ngs-makedb 15: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/data 15: Test timeout computed to be: 1500 15: Running 1 test case... 15: SparseFragmentBlobs (0 s) 15: 15: *** No errors detected (0 s total) 2/187 Test #15: Ngs_MakeDB ........................................ Passed 0.10 sec test 16 Start 16: Test_Ngs 16: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-ngs 16: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test 16: Test timeout computed to be: 1500 16: 16: *** No errors detected (0 s total) 3/187 Test #16: Test_Ngs .......................................... Passed 0.00 sec test 32 Start 32: GeneralWriterTest 32: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-writer 32: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test 32: Test timeout computed to be: 1500 32: CreateGw Success 32: --------------------------------- 32: addTable Success 32: --------------------------------- 32: addColumn Success 32: --------------------------------- 32: dbAddDatabase Success 32: --------------------------------- 32: dbAddTable Success 32: --------------------------------- 32: write Success 32: --------------------------------- 32: setDBMetadataNode Success 32: --------------------------------- 32: setTblMetadataNode Success 32: --------------------------------- 32: setColMetadataNode Success 32: --------------------------------- 32: setProgMsg Success 32: --------------------------------- 32: Attempting add table after endStream 32: state violation adding table 32: addTable correctly failed 32: endStream Success 32: --------------------------------- 4/187 Test #32: GeneralWriterTest ................................. Passed 0.00 sec test 33 Start 33: Ref-Variation-1.0 33: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "ref-variation" 33: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 33: Test timeout computed to be: 1500 33: ./have-access.sh: 6: vdb-config: not found 33: no access to repository, skipping ref-variation test... 5/187 Test #33: Ref-Variation-1.0 ................................. Passed 0.00 sec test 34 Start 34: Var-Expand-1.0 34: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "var-expand" 34: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 34: Test timeout computed to be: 1500 34: ./have-access.sh: 6: vdb-config: not found 34: no access to repository, skipping var-expand test... 6/187 Test #34: Var-Expand-1.0 .................................... Passed 0.00 sec test 35 Start 35: SearchBlockWhiteBox 35: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-searchblock 35: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test 35: Test timeout computed to be: 1500 35: Running 8 test cases... 35: FgrepDumb (0 s) 35: SearchFgrepBoyerMoore (0 s) 35: SearchFgrepAho (0 s) 35: SearchAgrepDP (0 s) 35: SearchNucStrstr_NoExpr_NoCoords (0 s) 35: SearchNucStrstr_NoExpr_Coords_NotSupported (0 s) 35: SearchNucStrstr_Expr_Coords (0 s) 35: SearchSmithWaterman_Coords_NotSupported (0 s) 35: 35: *** No errors detected (0 s total) 7/187 Test #35: SearchBlockWhiteBox ............................... Passed 0.00 sec test 38 Start 38: SraSearch-1.0-h 38: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.0-h" "--args" "-h" 38: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 38: Test timeout computed to be: 1500 38: running test case 1.0-h... passed 8/187 Test #38: SraSearch-1.0-h ................................... Passed 0.13 sec test 39 Start 39: SraSearch-1.1-help 39: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.1-help" "--args" "--help" 39: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 39: Test timeout computed to be: 1500 39: running test case 1.1-help... passed 9/187 Test #39: SraSearch-1.1-help ................................ Passed 0.09 sec test 40 Start 40: SraSearch-1.2-V 40: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search -V" "3.0.9" 40: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 40: Test timeout computed to be: 1500 40: sra-search : 3.0.9 10/187 Test #40: SraSearch-1.2-V ................................... Passed 0.01 sec test 41 Start 41: SraSearch-1.3-version 41: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search --version" "3.0.9" 41: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 41: Test timeout computed to be: 1500 41: sra-search : 3.0.9 11/187 Test #41: SraSearch-1.3-version ............................. Passed 0.01 sec test 42 Start 42: SraSearch-2.0-no-args 42: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.0-no-args" "--rc" "3" 42: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 42: Test timeout computed to be: 1500 42: running test case 2.0-no-args... passed 12/187 Test #42: SraSearch-2.0-no-args ............................. Passed 0.39 sec test 43 Start 43: SraSearch-2.1-no-run 43: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.1-no-run" "--rc" "3" "--args" "AGCT" 43: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 43: Test timeout computed to be: 1500 43: running test case 2.1-no-run... passed 13/187 Test #43: SraSearch-2.1-no-run .............................. Passed 0.75 sec test 44 Start 44: SraSearch-2.2-missing-algorithm 44: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.2-missing-algorithm" "--rc" "3" "--args" "AGCT SRR000001 -a" 44: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 44: Test timeout computed to be: 1500 44: running test case 2.2-missing-algorithm... passed 14/187 Test #44: SraSearch-2.2-missing-algorithm ................... Passed 0.45 sec test 45 Start 45: SraSearch-2.3-bad-algorithm 45: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.3-bad-algorithm" "--rc" "3" "--args" "--algorithm bad AGCT SRR000001" 45: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 45: Test timeout computed to be: 1500 45: running test case 2.3-bad-algorithm... passed 15/187 Test #45: SraSearch-2.3-bad-algorithm ....................... Passed 0.60 sec test 61 Start 61: SraSearch-5.1-run-not-nucstrstr-with-expression 61: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "5.1-run-not-nucstrstr-with-expression" "--args" "AAAAAAACCCCCCCAAAAAAACCCCCCC\|\|AGCTAGCTAGCT --algorithm FgrepStandard --expression SRR000001" "--rc" "3" 61: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 61: Test timeout computed to be: 1500 61: running test case 5.1-run-not-nucstrstr-with-expression... passed 16/187 Test #61: SraSearch-5.1-run-not-nucstrstr-with-expression ... Passed 0.43 sec test 62 Start 62: SraSearch-6.0.1-imperfect-match-no-arg 62: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.1-imperfect-match-no-arg" "--args" "AGCTAGCTAGCT SRR000001 -S" "--rc" "3" 62: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 62: Test timeout computed to be: 1500 62: running test case 6.0.1-imperfect-match-no-arg... passed 17/187 Test #62: SraSearch-6.0.1-imperfect-match-no-arg ............ Passed 0.14 sec test 63 Start 63: SraSearch-6.0.2-imperfect-match-bad-arg 63: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.2-imperfect-match-bad-arg" "--args" "AGCTAGCTAGCT SRR000001 -S qq" "--rc" "3" 63: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 63: Test timeout computed to be: 1500 63: running test case 6.0.2-imperfect-match-bad-arg... passed 18/187 Test #63: SraSearch-6.0.2-imperfect-match-bad-arg ........... Passed 0.34 sec test 64 Start 64: SraSearch-6.0.3-imperfect-match-default 64: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.3-imperfect-match-default" "--args" "AGCTAGCTAGCT -S 90 SRR000001" "--rc" "3" 64: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 64: Test timeout computed to be: 1500 64: running test case 6.0.3-imperfect-match-default... passed 19/187 Test #64: SraSearch-6.0.3-imperfect-match-default ........... Passed 0.46 sec test 65 Start 65: SraSearch-6.1-imperfect-match-fgrep-standard 65: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.1-imperfect-match-fgrep-standard" "--args" "AGCTAGCTAGCT --score 90 -a FgrepStandard SRR000001" "--rc" "3" 65: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 65: Test timeout computed to be: 1500 65: running test case 6.1-imperfect-match-fgrep-standard... passed 20/187 Test #65: SraSearch-6.1-imperfect-match-fgrep-standard ...... Passed 0.56 sec test 66 Start 66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore 66: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.2-imperfect-match-fgrep-boyer-moore" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepBoyerMoore SRR000001" "--rc" "3" 66: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 66: Test timeout computed to be: 1500 66: running test case 6.2-imperfect-match-fgrep-boyer-moore... passed 21/187 Test #66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore ... Passed 0.04 sec test 67 Start 67: SraSearch-6.3-imperfect-match-fgrep-aho 67: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.3-imperfect-match-fgrep-aho" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepAho SRR000001" "--rc" "3" 67: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 67: Test timeout computed to be: 1500 67: running test case 6.3-imperfect-match-fgrep-aho... passed 22/187 Test #67: SraSearch-6.3-imperfect-match-fgrep-aho ........... Passed 0.02 sec test 72 Start 72: SraSearch-6.8-imperfect-match-nucstrstr 72: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.8-imperfect-match-nucstrstr" "--args" "AGCTAGCTAGCT --score 90 --algorithm NucStrstr SRR000001" "--rc" "3" 72: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 72: Test timeout computed to be: 1500 72: running test case 6.8-imperfect-match-nucstrstr... passed 23/187 Test #72: SraSearch-6.8-imperfect-match-nucstrstr ........... Passed 0.01 sec test 74 Start 74: SraSearch-7.0.1-threads-no-arg 74: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.1-threads-no-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 -T" 74: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 74: Test timeout computed to be: 1500 74: running test case 7.0.1-threads-no-arg... passed 24/187 Test #74: SraSearch-7.0.1-threads-no-arg .................... Passed 0.02 sec test 75 Start 75: SraSearch-7.0.2-threads-bad-arg 75: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.2-threads-bad-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 --threads -1" 75: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 75: Test timeout computed to be: 1500 75: running test case 7.0.2-threads-bad-arg... passed 25/187 Test #75: SraSearch-7.0.2-threads-bad-arg ................... Passed 0.02 sec test 80 Start 80: SlowTest_SraSearch-8.0-nothing-found 80: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "8.0-nothing-found" "--rc" "3" "--args" "TTTTTTTTAAAAAAACCCC -T 1 SRR000001" 80: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 80: Test timeout computed to be: 1500 80: running test case 8.0-nothing-found... passed 26/187 Test #80: SlowTest_SraSearch-8.0-nothing-found .............. Passed 1.05 sec test 84 Start 84: SraSearch-9.3-reference-expression 84: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "9.3-reference-expression" "--args" "ACGTAGGGTCC SRR600094 --reference --expression" "--rc" "3" 84: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 84: Test timeout computed to be: 1500 84: running test case 9.3-reference-expression... passed 27/187 Test #84: SraSearch-9.3-reference-expression ................ Passed 0.29 sec test 86 Start 86: GeneralLoaderWhiteBox 86: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-loader 86: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 86: Test timeout computed to be: 1500 86: Unpacked protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) 86: BadSignature (0 s) 86: BadEndianness (0 s) 86: ReverseEndianness (0 s) 86: LaterVersion (0 s) 86: BadSchemaFileName (0 s) 86: BadSchemaFileName_Long (0 s) 86: BadSchemaName (0 s) 86: BadSchemaName_Long (0 s) 86: BadTableName (0 s) 86: BadTableName_Long (0 s) 86: DuplicateTableId (0 s) 86: BadColumnName (0 s) 86: BadTableId (0 s) 86: DuplicateColumnName (0 s) 86: DuplicateColumnId (0 s) 86: NoOpenStreamEvent (0 s) 86: NoCloseStreamEvent (0 s) 86: NoColumns (0 s) 86: SoftwareName (0 s) 86: SoftwareName_BadVersion (0 s) 86: DBAddDatabase (0 s) 86: DBAddSubDatabase (0 s) 86: DBAddTable (0 s) 86: DBAddTableToSubDb (0 s) 86: DBMetadataNode (0 s) 86: SubDBMetadataNode (0 s) 86: TblMetadataNode (0 s) 86: ColMetadataNode (0 s) 86: NoData (0 s) 86: Chunk_BadColumnId (0 s) 86: WriteNoCommit (0 s) 86: CommitBadTableId (0 s) 86: OneColumnOneCellOneChunk (0 s) 86: OneColumnOneCellOneChunk_Long (0 s) 86: OneColumnOneCellManyChunks (0 s) 86: IntegerCompression_MinimumCompression (0 s) 86: IntegerCompression_MaximumCompression (0 s) 86: IntegerCompression_MultipleValues (0 s) 86: OneColumnDefaultNoWrite (0 s) 86: OneColumnDefaultNoWrite_Long (0 s) 86: MoveAhead (0 s) 86: OneColumnDefaultOverwite (0 s) 86: OneColumnChangeDefault (0 s) 86: OneColumnDataAndDefaultsMixed (0 s) 86: TwoColumnsFullRow (0 s) 86: TwoColumnsIncompleteRow (0 s) 86: TwoColumnsPartialRowWithDefaults (0 s) 86: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 86: EmptyDefault_String (0 s) 86: EmptyDefault_Int (0 s) 86: MultipleTables_Multiple_Columns_MultipleRows (0 s) 86: AdditionalSchemaIncludePaths_Single (0 s) 86: AdditionalSchemaIncludePaths_Multiple (0 s) 86: AdditionalSchemaFiles_Single (0 s) 86: AdditionalSchemaFiles_Multiple (0 s) 86: ErrorMessage (0 s) 86: ErrorMessage_Long (0 s) 86: LogMessage (0 s) 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: 86: *** No errors detected (2 s total) 86: Packed protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) 86: BadSignature (0 s) 86: BadEndianness (0 s) 86: ReverseEndianness (0 s) 86: LaterVersion (0 s) 86: BadSchemaFileName (0 s) 86: BadSchemaFileName_Long (0 s) 86: BadSchemaName (0 s) 86: BadSchemaName_Long (0 s) 86: BadTableName (0 s) 86: BadTableName_Long (0 s) 86: DuplicateTableId (0 s) 86: BadColumnName (0 s) 86: BadTableId (0 s) 86: DuplicateColumnName (0 s) 86: DuplicateColumnId (0 s) 86: NoOpenStreamEvent (0 s) 86: NoCloseStreamEvent (0 s) 86: NoColumns (0 s) 86: SoftwareName (0 s) 86: SoftwareName_BadVersion (0 s) 86: DBAddDatabase (0 s) 86: DBAddSubDatabase (0 s) 86: DBAddTable (0 s) 86: DBAddTableToSubDb (0 s) 86: DBMetadataNode (0 s) 86: SubDBMetadataNode (0 s) 86: TblMetadataNode (0 s) 86: ColMetadataNode (0 s) 86: NoData (0 s) 86: Chunk_BadColumnId (0 s) 86: WriteNoCommit (0 s) 86: CommitBadTableId (0 s) 86: OneColumnOneCellOneChunk (0 s) 86: OneColumnOneCellOneChunk_Long (0 s) 86: OneColumnOneCellManyChunks (0 s) 86: IntegerCompression_MinimumCompression (0 s) 86: IntegerCompression_MaximumCompression (0 s) 86: IntegerCompression_MultipleValues (0 s) 86: OneColumnDefaultNoWrite (0 s) 86: OneColumnDefaultNoWrite_Long (0 s) 86: MoveAhead (0 s) 86: OneColumnDefaultOverwite (0 s) 86: OneColumnChangeDefault (0 s) 86: OneColumnDataAndDefaultsMixed (0 s) 86: TwoColumnsFullRow (0 s) 86: TwoColumnsIncompleteRow (0 s) 86: TwoColumnsPartialRowWithDefaults (0 s) 86: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 86: EmptyDefault_String (0 s) 86: EmptyDefault_Int (0 s) 86: MultipleTables_Multiple_Columns_MultipleRows (0 s) 86: AdditionalSchemaIncludePaths_Single (0 s) 86: AdditionalSchemaIncludePaths_Multiple (0 s) 86: AdditionalSchemaFiles_Single (0 s) 86: AdditionalSchemaFiles_Multiple (0 s) 86: ErrorMessage (0 s) 86: ErrorMessage_Long (0 s) 86: LogMessage (0 s) 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: 86: *** No errors detected (3 s total) 28/187 Test #86: GeneralLoaderWhiteBox ............................. Passed 6.05 sec test 87 Start 87: GWDumper 87: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-gw-dumper 87: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test 87: Test timeout computed to be: 1500 29/187 Test #87: GWDumper .......................................... Passed 0.00 sec test 88 Start 88: makeinputs 88: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/makeinputs 88: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 88: Test timeout computed to be: 1500 30/187 Test #88: makeinputs ........................................ Passed 0.00 sec test 89 Start 89: GeneralLoader-1.0-Basic-Unpacked 89: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1" "0" "-I/usr/include/ncbi-vdb" 89: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 89: Test timeout computed to be: 1500 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1 0 -I/usr/include/ncbi-vdb 89: running test case 1 89: cat input/1.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stderr 89: Load succeeded, dumping and matching stdout 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stderr 31/187 Test #89: GeneralLoader-1.0-Basic-Unpacked .................. Passed 0.47 sec test 90 Start 90: GeneralLoader-1.1-Basic-Packed 90: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1packed" "0" "-I/usr/include/ncbi-vdb" 90: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 90: Test timeout computed to be: 1500 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1packed 0 -I/usr/include/ncbi-vdb 90: running test case 1packed 90: cat input/1packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stderr 90: Load succeeded, dumping and matching stdout 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stderr 32/187 Test #90: GeneralLoader-1.1-Basic-Packed .................... Passed 0.30 sec test 91 Start 91: GeneralLoader-1.2-TargetDbOverride 91: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1override" "0" "-I/usr/include/ncbi-vdb --target actual/1override/db" 91: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 91: Test timeout computed to be: 1500 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1override 0 -I/usr/include/ncbi-vdb --target actual/1override/db 91: running test case 1override 91: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb --target actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 91: Load succeeded, dumping and matching stdout 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr 33/187 Test #91: GeneralLoader-1.2-TargetDbOverride ................ Passed 0.31 sec test 92 Start 92: GeneralLoader-1.3-TargetDbOverrideShorthand 92: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1override" "0" "-I/usr/include/ncbi-vdb -T actual/1override/db" 92: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 92: Test timeout computed to be: 1500 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1override 0 -I/usr/include/ncbi-vdb -T actual/1override/db 92: running test case 1override 92: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -T actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 92: Load succeeded, dumping and matching stdout 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr 34/187 Test #92: GeneralLoader-1.3-TargetDbOverrideShorthand ....... Passed 0.35 sec test 93 Start 93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked 93: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "2" "3" "-I/usr/include/ncbi-vdb -L=err" 93: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 93: Test timeout computed to be: 1500 93: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 2 3 -I/usr/include/ncbi-vdb -L=err 93: running test case 2 93: cat input/2.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stderr 93: Load failed as expected, matching stderr 35/187 Test #93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked ...... Passed 0.18 sec test 94 Start 94: GeneralLoader-2.1-ErrorMessageEvent-Packed 94: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "2packed" "3" "-I/usr/include/ncbi-vdb -L=err" 94: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 94: Test timeout computed to be: 1500 94: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 2packed 3 -I/usr/include/ncbi-vdb -L=err 94: running test case 2packed 94: cat input/2packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stderr 94: Load failed as expected, matching stderr 36/187 Test #94: GeneralLoader-2.1-ErrorMessageEvent-Packed ........ Passed 0.42 sec test 95 Start 95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked 95: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "3" "0" "-I/usr/include/ncbi-vdb" 95: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 95: Test timeout computed to be: 1500 95: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 3 0 -I/usr/include/ncbi-vdb 95: running test case 3 95: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 95: Load succeeded, dumping and matching stdout 95: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr 37/187 Test #95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked ..... Passed 0.46 sec test 96 Start 96: GeneralLoader-3.1-EmptyDefaultValues-Packed 96: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "3" "0" "-I/usr/include/ncbi-vdb" 96: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 96: Test timeout computed to be: 1500 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 3 0 -I/usr/include/ncbi-vdb 96: running test case 3 96: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 96: Load succeeded, dumping and matching stdout 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr 38/187 Test #96: GeneralLoader-3.1-EmptyDefaultValues-Packed ....... Passed 0.52 sec test 97 Start 97: GeneralLoader-4.0-MoveAheadEvent-Unpacked 97: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "4" "0" "-I/usr/include/ncbi-vdb" 97: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 97: Test timeout computed to be: 1500 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 4 0 -I/usr/include/ncbi-vdb 97: running test case 4 97: cat input/4.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stderr 97: Load succeeded, dumping and matching stdout 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stderr 39/187 Test #97: GeneralLoader-4.0-MoveAheadEvent-Unpacked ......... Passed 0.32 sec test 98 Start 98: GeneralLoader-4.1-MoveAheadEvent-Packed 98: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "4packed" "0" "-I/usr/include/ncbi-vdb" 98: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 98: Test timeout computed to be: 1500 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 4packed 0 -I/usr/include/ncbi-vdb 98: running test case 4packed 98: cat input/4packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stderr 98: Load succeeded, dumping and matching stdout 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stderr 40/187 Test #98: GeneralLoader-4.1-MoveAheadEvent-Packed ........... Passed 0.49 sec test 99 Start 99: GeneralLoader-5.0-IntegerConversion 99: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "5packed" "0" "-I/usr/include/ncbi-vdb" 99: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 99: Test timeout computed to be: 1500 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 5packed 0 -I/usr/include/ncbi-vdb 99: running test case 5packed 99: cat input/5packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stderr 99: Load succeeded, dumping and matching stdout 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stderr 41/187 Test #99: GeneralLoader-5.0-IntegerConversion ............... Passed 0.35 sec test 100 Start 100: GeneralLoader-6.0-SoftwareName-Unpacked 100: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "6" "0" "-L=info -I/usr/include/ncbi-vdb" "SOFTWARE/formatter" 100: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 100: Test timeout computed to be: 1500 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 6 0 -L=info -I/usr/include/ncbi-vdb SOFTWARE/formatter 100: running test case 6 100: cat input/6.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stderr 100: Load succeeded, dumping and matching stdout 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stderr 42/187 Test #100: GeneralLoader-6.0-SoftwareName-Unpacked ........... Passed 0.18 sec test 101 Start 101: GeneralLoader-6.1-SoftwareName-Packed 101: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "6packed" "0" "-L=info -I/usr/include/ncbi-vdb" "SOFTWARE/formatter" 101: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 101: Test timeout computed to be: 1500 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 6packed 0 -L=info -I/usr/include/ncbi-vdb SOFTWARE/formatter 101: running test case 6packed 101: cat input/6packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stderr 101: Load succeeded, dumping and matching stdout 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stderr 43/187 Test #101: GeneralLoader-6.1-SoftwareName-Packed ............. Passed 0.40 sec test 102 Start 102: bio-end-makeinputs 102: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/bio-end-makeinputs 102: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 102: Test timeout computed to be: 1500 44/187 Test #102: bio-end-makeinputs ................................ Passed 0.00 sec test 103 Start 103: BioEnd-Excl-1 103: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/usr/include/ncbi-vdb" "-L=debug" 103: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 103: Test timeout computed to be: 1500 103: running test bio-end:excl-1 45/187 Test #103: BioEnd-Excl-1 ..................................... Passed 0.23 sec test 104 Start 104: BioEnd-Excl-2 104: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-2" "0" "n" "-I/usr/include/ncbi-vdb" 104: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 104: Test timeout computed to be: 1500 104: running test bio-end:excl-2 46/187 Test #104: BioEnd-Excl-2 ..................................... Passed 0.27 sec test 105 Start 105: BioEnd-Excl-3 105: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-3" "0" "n" "-I/usr/include/ncbi-vdb" 105: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 105: Test timeout computed to be: 1500 105: running test bio-end:excl-3 47/187 Test #105: BioEnd-Excl-3 ..................................... Passed 0.14 sec test 106 Start 106: BioEnd-Excl-4 106: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-4" "0" "n" "-I/usr/include/ncbi-vdb" 106: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 106: Test timeout computed to be: 1500 106: running test bio-end:excl-4 48/187 Test #106: BioEnd-Excl-4 ..................................... Passed 0.14 sec test 107 Start 107: BioEnd-Incl-1 107: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "incl-1" "0" "n" "-I/usr/include/ncbi-vdb" 107: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 107: Test timeout computed to be: 1500 107: running test bio-end:incl-1 49/187 Test #107: BioEnd-Incl-1 ..................................... Passed 0.15 sec test 108 Start 108: IdxText-CI-1 108: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/usr/include/ncbi-vdb" 108: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 108: Test timeout computed to be: 1500 108: running test bio-end:excl-1 50/187 Test #108: IdxText-CI-1 ...................................... Passed 0.14 sec test 109 Start 109: idx-text-makeinputs 109: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-makeinputs 109: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 109: Test timeout computed to be: 1500 51/187 Test #109: idx-text-makeinputs ............................... Passed 0.00 sec test 110 Start 110: IdxText-ci-1 110: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-1" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 110: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 110: Test timeout computed to be: 1500 110: running test idx-text:ci-1 52/187 Test #110: IdxText-ci-1 ...................................... Passed 0.15 sec test 111 Start 111: IdxText-ci-2 111: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-2" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 111: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 111: Test timeout computed to be: 1500 111: running test idx-text:ci-2 53/187 Test #111: IdxText-ci-2 ...................................... Passed 0.14 sec test 112 Start 112: IdxText-ci-3 112: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-3" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 112: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 112: Test timeout computed to be: 1500 112: running test idx-text:ci-3 54/187 Test #112: IdxText-ci-3 ...................................... Passed 0.15 sec test 113 Start 113: IdxText-ci-4 113: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-4" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 113: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 113: Test timeout computed to be: 1500 113: running test idx-text:ci-4 55/187 Test #113: IdxText-ci-4 ...................................... Passed 0.15 sec test 114 Start 114: IdxText-ci-5 114: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-5" "0" "n" "-I/usr/include/ncbi-vdb" 114: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 114: Test timeout computed to be: 1500 114: running test idx-text:ci-5 56/187 Test #114: IdxText-ci-5 ...................................... Passed 0.11 sec test 115 Start 115: IdxText-cs-1 115: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-1" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 115: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 115: Test timeout computed to be: 1500 115: running test idx-text:cs-1 57/187 Test #115: IdxText-cs-1 ...................................... Passed 0.15 sec test 116 Start 116: IdxText-cs-2 116: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-2" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 116: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 116: Test timeout computed to be: 1500 116: running test idx-text:cs-2 58/187 Test #116: IdxText-cs-2 ...................................... Passed 0.14 sec test 117 Start 117: IdxText-cs-3 117: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-3" "0" "n" "-I/usr/include/ncbi-vdb" 117: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 117: Test timeout computed to be: 1500 117: running test idx-text:cs-3 59/187 Test #117: IdxText-cs-3 ...................................... Passed 0.10 sec test 118 Start 118: PileupStats-Version 118: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -V | grep --quiet `head -n 1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers`" 118: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 118: Test timeout computed to be: 1500 60/187 Test #118: PileupStats-Version ............................... Passed 0.01 sec test 119 Start 119: PileupStats-Help 119: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -h | grep --quiet Usage" 119: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 119: Test timeout computed to be: 1500 61/187 Test #119: PileupStats-Help .................................. Passed 0.01 sec test 120 Start 120: PileupStats-NoArgs 120: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats; if [ $? == 0 ] ; then exit 1; fi;" 120: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 120: Test timeout computed to be: 1500 120: 120: Usage: 120: pileup-stats [options] 120: 120: Options: 120: -o|--output-file file for output 120: (default pipe to stdout) 120: -r|--remote-db name of remote database to create 120: (default .pileup_stat) 120: -x|--depth-cutoff cutoff for depth <= value (default 1) 120: -e|--event-cutoff cutoff for number of events > value (default 1) 120: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 120: -a|--align-category the types of alignments to pile up: 120: { primary, secondary, all } (default primary) 120: --buffer-size bytes size of output pipe buffer - default 32K bytes 120: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 120: -h|--help output brief explanation of the program 120: -v|--verbose increase the verbosity of the program. 120: -V|--version display the version of the program then quit. 120: use multiple times for more verbosity. 120: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 120: 120: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 120: 120: /usr/bin/sh: 1: [: 3: unexpected operator 62/187 Test #120: PileupStats-NoArgs ................................ Passed 0.00 sec test 121 Start 121: PileupStats-IgnoreArgs-L 121: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -L 1; if [ $? == 0 ] ; then exit 1; fi;" 121: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 121: Test timeout computed to be: 1500 121: 121: Usage: 121: pileup-stats [options] 121: 121: Options: 121: -o|--output-file file for output 121: (default pipe to stdout) 121: -r|--remote-db name of remote database to create 121: (default .pileup_stat) 121: -x|--depth-cutoff cutoff for depth <= value (default 1) 121: -e|--event-cutoff cutoff for number of events > value (default 1) 121: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 121: -a|--align-category the types of alignments to pile up: 121: { primary, secondary, all } (default primary) 121: --buffer-size bytes size of output pipe buffer - default 32K bytes 121: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 121: -h|--help output brief explanation of the program 121: -v|--verbose increase the verbosity of the program. 121: -V|--version display the version of the program then quit. 121: use multiple times for more verbosity. 121: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 121: 121: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 121: 121: /usr/bin/sh: 1: [: 3: unexpected operator 63/187 Test #121: PileupStats-IgnoreArgs-L .......................... Passed 0.00 sec test 122 Start 122: PileupStats-IgnoreArgs-z 122: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -z ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 122: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 122: Test timeout computed to be: 1500 122: 122: Usage: 122: pileup-stats [options] 122: 122: Options: 122: -o|--output-file file for output 122: (default pipe to stdout) 122: -r|--remote-db name of remote database to create 122: (default .pileup_stat) 122: -x|--depth-cutoff cutoff for depth <= value (default 1) 122: -e|--event-cutoff cutoff for number of events > value (default 1) 122: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 122: -a|--align-category the types of alignments to pile up: 122: { primary, secondary, all } (default primary) 122: --buffer-size bytes size of output pipe buffer - default 32K bytes 122: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 122: -h|--help output brief explanation of the program 122: -v|--verbose increase the verbosity of the program. 122: -V|--version display the version of the program then quit. 122: use multiple times for more verbosity. 122: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 122: 122: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 122: 122: /usr/bin/sh: 1: [: 3: unexpected operator 64/187 Test #122: PileupStats-IgnoreArgs-z .......................... Passed 0.00 sec test 123 Start 123: PileupStats-IgnoreArgs-loglevel 123: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --log-level 1; if [ $? == 0 ] ; then exit 1; fi;" 123: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 123: Test timeout computed to be: 1500 123: 123: Usage: 123: pileup-stats [options] 123: 123: Options: 123: -o|--output-file file for output 123: (default pipe to stdout) 123: -r|--remote-db name of remote database to create 123: (default .pileup_stat) 123: -x|--depth-cutoff cutoff for depth <= value (default 1) 123: -e|--event-cutoff cutoff for number of events > value (default 1) 123: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 123: -a|--align-category the types of alignments to pile up: 123: { primary, secondary, all } (default primary) 123: --buffer-size bytes size of output pipe buffer - default 32K bytes 123: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 123: -h|--help output brief explanation of the program 123: -v|--verbose increase the verbosity of the program. 123: -V|--version display the version of the program then quit. 123: use multiple times for more verbosity. 123: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 123: 123: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 123: 123: /usr/bin/sh: 1: [: 3: unexpected operator 65/187 Test #123: PileupStats-IgnoreArgs-loglevel ................... Passed 0.00 sec test 124 Start 124: PileupStats-IgnoreArgs-xmllog 124: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 124: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 124: Test timeout computed to be: 1500 124: 124: Usage: 124: pileup-stats [options] 124: 124: Options: 124: -o|--output-file file for output 124: (default pipe to stdout) 124: -r|--remote-db name of remote database to create 124: (default .pileup_stat) 124: -x|--depth-cutoff cutoff for depth <= value (default 1) 124: -e|--event-cutoff cutoff for number of events > value (default 1) 124: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 124: -a|--align-category the types of alignments to pile up: 124: { primary, secondary, all } (default primary) 124: --buffer-size bytes size of output pipe buffer - default 32K bytes 124: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 124: -h|--help output brief explanation of the program 124: -v|--verbose increase the verbosity of the program. 124: -V|--version display the version of the program then quit. 124: use multiple times for more verbosity. 124: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 124: 124: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 124: 124: /usr/bin/sh: 1: [: 3: unexpected operator 66/187 Test #124: PileupStats-IgnoreArgs-xmllog ..................... Passed 0.00 sec test 125 Start 125: PileupStats-IgnoreArgs-xmllogfd 125: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log-fd ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 125: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 125: Test timeout computed to be: 1500 125: 125: Usage: 125: pileup-stats [options] 125: 125: Options: 125: -o|--output-file file for output 125: (default pipe to stdout) 125: -r|--remote-db name of remote database to create 125: (default .pileup_stat) 125: -x|--depth-cutoff cutoff for depth <= value (default 1) 125: -e|--event-cutoff cutoff for number of events > value (default 1) 125: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 125: -a|--align-category the types of alignments to pile up: 125: { primary, secondary, all } (default primary) 125: --buffer-size bytes size of output pipe buffer - default 32K bytes 125: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 125: -h|--help output brief explanation of the program 125: -v|--verbose increase the verbosity of the program. 125: -V|--version display the version of the program then quit. 125: use multiple times for more verbosity. 125: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 125: 125: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 125: 125: /usr/bin/sh: 1: [: 3: unexpected operator 67/187 Test #125: PileupStats-IgnoreArgs-xmllogfd ................... Passed 0.00 sec test 126 Start 126: test-vdb 126: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb 126: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb 126: Test timeout computed to be: 1500 126: Running 38 test cases... 126: Error_RcToString (0 s) 126: Error_RcToString_English (0 s) 126: Manager_Construction (0 s) 126: RC 1426393646 thrown by ./libs/inc/vdb.hpp:239 126: Manager_Schema_Bad (0 s) 126: Manager_Schema_Good (0 s) 126: Manager_Schema_Include (0 s) 126: Manager_SchemaFromFile (0 s) 126: Manager_SchemaFromFile_Bad (0 s) 126: RC 2615477144 thrown by ./libs/inc/vdb.hpp:621 126: Manager_Database_Bad (0 s) 126: Manager_OpenDatabase_Good (0 s) 126: RC 1273301772 thrown by ./libs/inc/vdb.hpp:628 126: Manager_OpenTable_Bad (0 s) 126: Manager_OpenTable_Good (0 s) 126: Manager_PathType_Table (0 s) 126: Manager_PathType_Database (0 s) 126: Manager_PathType_Invalid (0 s) 126: RC 807538648 thrown by ./libs/inc/vdb.hpp:551 126: Database_Table_Bad (0 s) 126: Database_Table_Good (0 s) 126: Database_hasTable_Yes (0 s) 126: Database_hasTable_No (0 s) 126: Table_Default (0 s) 126: Table_Assign (0 s) 126: RC 1367638680 thrown by ./libs/inc/vdb.hpp:437 126: Table_ReadCursor1_BadColumn (0 s) 126: Table_ReadCursor1 (0 s) 126: RC 1367638680 thrown by ./libs/inc/vdb.hpp:470 126: Table_ReadCursor2_BadColumn (0 s) 126: Table_ReadCursor2 (0 s) 126: Table_PhysicaColumns (0 s) 126: Cursor_Columns (0 s) 126: Cursor_RowRange (0 s) 126: Cursor_ReadOne (0 s) 126: Cursor_ReadN (0 s) 126: Cursor_ForEach (0 s) 126: Cursor_ForEachWithFilter (0 s) 126: Cursor_IsStaticColumn_True (0 s) 126: Cursor_IsStaticColumn_False (0 s) 126: RawData_asVector_badCast (0 s) 126: RawData_asVector (0 s) 126: RawData_value_badCast (0 s) 126: RawData_value (0 s) 126: 126: *** No errors detected (2 s total) 68/187 Test #126: test-vdb .......................................... Passed 2.11 sec test 127 Start 127: Test_NgsJava_lib_load 127: Test command: /usr/bin/java "-cp" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar" "-Dvdb.System.loadLibrary=1" "-Dvdb.log=FINEST" "org.junit.runner.JUnitCore" "gov.nih.nlm.ncbi.ngs.ngs_test_lib_load" 127: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java 127: Test timeout computed to be: 1500 127: JUnit version 4.11 127: ......... 127: Time: 0.054 127: 127: OK (9 tests) 127: 69/187 Test #127: Test_NgsJava_lib_load ............................. Passed 0.21 sec test 131 Start 131: Test_Align_Info 131: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info "-h" 131: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info 131: Test timeout computed to be: 1500 131: Usage: 131: align-info [options] 131: 131: Summary: 131: Print database alignment information 131: 131: Parameters: 131: db-path Path to the database 131: 131: Options: 131: -a|--all print all information 131: -r|--ref print refseq information [default] 131: -b|--bam print bam header (if present) 131: -Q|--qual print quality statistics (if present) 131: -H|--headers print headers for output blocks 131: --ngc path to ngc file 131: 131: -h|--help Output brief explanation for the program. 131: -V|--version Display the version of the program then 131: quit. 131: -L|--log-level Logging level as number or enum string. One 131: of (fatal|sys|int|err|warn|info|debug) or 131: (0-6) Current/default is warn. 131: -v|--verbose Increase the verbosity of the program 131: status messages. Use multiple times for more 131: verbosity. Negates quiet. 131: -q|--quiet Turn off all status messages for the 131: program. Negated by verbose. 131: --option-file Read more options and parameters from the 131: file. 131: 131: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info : 3.0.9 131: 70/187 Test #131: Test_Align_Info ................................... Passed 0.00 sec test 132 Start 132: Test_Drivertool_BuildVersion 132: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_BuildVersion 132: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 132: Test timeout computed to be: 1500 132: Test_Version passed. 71/187 Test #132: Test_Drivertool_BuildVersion ...................... Passed 0.00 sec test 133 Start 133: Test_Drivertool_FilePath 133: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_FilePath 133: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 133: Test timeout computed to be: 1500 133: Running 27 test cases... 133: DefaultConstruct (0 s) 133: Construct_Cstring (0 s) 133: Construct_String (0 s) 133: CopyConstruct_Empty (0 s) 133: CopyConstruct (0 s) 133: Assign_Empty (0 s) 133: Assign (0 s) 133: Copy (0 s) 133: Split (0 s) 133: BaseName (0 s) 133: Append (0 s) 133: RemoveSuffix_0 (0 s) 133: RemoveSuffix (0 s) 133: RemoveSuffix_Ext (0 s) 133: RemoveSuffix_Oversized (0 s) 133: SimpleName (0 s) 133: CWD (0 s) 133: Exists (0 s) 133: CWD_Append (0 s) 133: Exists_Static (0 s) 133: Readable (0 s) 133: IsSame_Directory (0 s) 133: NotIsSame_Directory (0 s) 133: IsSame_File (0 s) 133: NotIsSame_File (0 s) 133: Current_Executable (0 s) 133: Executable_Yes (0 s) 133: 133: *** No errors detected (0 s total) 72/187 Test #133: Test_Drivertool_FilePath .......................... Passed 0.00 sec test 134 Start 134: Test_Drivertool_CommandLine 134: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_CommandLine 134: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 134: Test timeout computed to be: 1500 134: Test_CommandLine passed. 73/187 Test #134: Test_Drivertool_CommandLine ....................... Passed 0.00 sec test 135 Start 135: Test_Drivertool_JsonParsing 135: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_JsonParsing 135: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 135: Test timeout computed to be: 1500 74/187 Test #135: Test_Drivertool_JsonParsing ....................... Passed 0.01 sec test 136 Start 136: Test_Drivertool_SDLResponse 136: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_SDLResponse 136: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 136: Test timeout computed to be: 1500 75/187 Test #136: Test_Drivertool_SDLResponse ....................... Passed 0.00 sec test 137 Start 137: Test_Drivertool_Accession 137: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_Accession 137: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 137: Test timeout computed to be: 1500 76/187 Test #137: Test_Drivertool_Accession ......................... Passed 0.00 sec test 138 Start 138: Test_Drivertool_UUID 138: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_UUID 138: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 138: Test timeout computed to be: 1500 77/187 Test #138: Test_Drivertool_UUID .............................. Passed 0.40 sec test 139 Start 139: Test_Drivertool_RunSource 139: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_RunSource 139: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 139: Test timeout computed to be: 1500 139: Running 18 test cases... 139: CopmmandLine_GetToolPath (0 s) 139: CommandLine_Defaults (0 s) 139: UnknownTool (0 s) 139: URL_parameter (0 s) 139: ConstructNoSDL (0 s) 139: ConstructSDL_false (0 s) 139: ConstructSDL_true (0 s) 139: ConstructSDL_badSDL (0 s) 139: ConstructSDL_noResults (0 s) 139: ConstructSDL_oneResult (0 s) 139: ConstructSDL_multipleFiles (0 s) 139: ConstructSDL_multipleLocations (0 s) 139: Query SRR000001: Error 400 no data 139: ConstructSDL_status_400 (0 s) 139: ConstructSDL_status_404 (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_pileupIgnored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_noObject_Ignored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_noQuality_Ignored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_Encrypted_NoNGC_Skipped (0 s) 139: 139: *** No errors detected (0 s total) 78/187 Test #139: Test_Drivertool_RunSource ......................... Passed 0.01 sec test 140 Start 140: Test_Drivertool_ToolArgs 140: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_ToolArgs 140: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 140: Test timeout computed to be: 1500 140: Running 1 test case... 140: ParseArgs (0 s) 140: 140: *** No errors detected (0 s total) 79/187 Test #140: Test_Drivertool_ToolArgs .......................... Passed 0.00 sec test 141 Start 141: Test_FasterqDump_Help 141: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump "-h" 141: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 141: Test timeout computed to be: 1500 141: 141: Usage: 141: fasterq-dump [options] 141: fasterq-dump [options] 141: 141: Options: 141: -F|--format format (special, fastq, default=fastq) 141: -o|--outfile output-file 141: -O|--outdir output-dir 141: -b|--bufsize size of file-buffer dflt=1MB 141: -c|--curcache size of cursor-cache dflt=10MB 141: -m|--mem memory limit for sorting dflt=100MB 141: -t|--temp where to put temp. files dflt=curr dir 141: -e|--threads how many thread dflt=6 141: -p|--progress show progress 141: -x|--details print details 141: -s|--split-spot split spots into reads 141: -S|--split-files write reads into different files 141: -3|--split-3 writes single reads in special file 141: --concatenate-reads writes whole spots into one file 141: -Z|--stdout print output to stdout 141: -f|--force force to overwrite existing file(s) 141: --skip-technical skip technical reads 141: --include-technical include technical reads 141: -M|--min-read-len filter by sequence-len 141: --table which seq-table to use in case of pacbio 141: -B|--bases filter by bases 141: -A|--append append to output-file 141: --fasta produce FASTA output 141: --fasta-unsorted produce FASTA output, unsorted 141: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 141: --fasta-concat-all concatenate all rows and produce FASTA 141: --internal-ref extract only internal REFERENCEs 141: --external-ref extract only external REFERENCEs 141: --ref-name extract only these REFERENCEs 141: --ref-report enumerate references 141: --use-name print name instead of seq-id 141: --seq-defline custom defline for sequence: $ac=accession, 141: $sn=spot-name, $sg=spot-group, $si=spot-id, 141: $ri=read-id, $rl=read-length 141: --qual-defline custom defline for qualities: same as 141: seq-defline 141: -U|--only-unaligned process only unaligned reads 141: -a|--only-aligned process only aligned reads 141: --disk-limit explicitly set disk-limit 141: --disk-limit-tmp explicitly set disk-limit for temp. files 141: --size-check switch to control: on=perform size-check 141: (default), off=do not perform size-check, 141: only=perform size-check only 141: --ngc PATH to ngc file 141: 141: -h|--help Output brief explanation for the program. 141: -V|--version Display the version of the program then 141: quit. 141: -L|--log-level Logging level as number or enum string. One 141: of (fatal|sys|int|err|warn|info|debug) or 141: (0-6) Current/default is warn. 141: -v|--verbose Increase the verbosity of the program 141: status messages. Use multiple times for more 141: verbosity. Negates quiet. 141: -q|--quiet Turn off all status messages for the 141: program. Negated by verbose. 141: --option-file Read more options and parameters from the 141: file. 141: for more information visit: 141: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 141: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 141: 141: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 141: 80/187 Test #141: Test_FasterqDump_Help ............................. Passed 0.00 sec test 142 Start 142: Test_FasterqDump_NotZeroWithoutParameters 142: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump 142: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 142: Test timeout computed to be: 1500 142: 142: Usage: 142: fasterq-dump [options] 142: fasterq-dump [options] 142: 142: Options: 142: -F|--format format (special, fastq, default=fastq) 142: -o|--outfile output-file 142: -O|--outdir output-dir 142: -b|--bufsize size of file-buffer dflt=1MB 142: -c|--curcache size of cursor-cache dflt=10MB 142: -m|--mem memory limit for sorting dflt=100MB 142: -t|--temp where to put temp. files dflt=curr dir 142: -e|--threads how many thread dflt=6 142: -p|--progress show progress 142: -x|--details print details 142: -s|--split-spot split spots into reads 142: -S|--split-files write reads into different files 142: -3|--split-3 writes single reads in special file 142: --concatenate-reads writes whole spots into one file 142: -Z|--stdout print output to stdout 142: -f|--force force to overwrite existing file(s) 142: --skip-technical skip technical reads 142: --include-technical include technical reads 142: -M|--min-read-len filter by sequence-len 142: --table which seq-table to use in case of pacbio 142: -B|--bases filter by bases 142: -A|--append append to output-file 142: --fasta produce FASTA output 142: --fasta-unsorted produce FASTA output, unsorted 142: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 142: --fasta-concat-all concatenate all rows and produce FASTA 142: --internal-ref extract only internal REFERENCEs 142: --external-ref extract only external REFERENCEs 142: --ref-name extract only these REFERENCEs 142: --ref-report enumerate references 142: --use-name print name instead of seq-id 142: --seq-defline custom defline for sequence: $ac=accession, 142: $sn=spot-name, $sg=spot-group, $si=spot-id, 142: $ri=read-id, $rl=read-length 142: --qual-defline custom defline for qualities: same as 142: seq-defline 142: -U|--only-unaligned process only unaligned reads 142: -a|--only-aligned process only aligned reads 142: --disk-limit explicitly set disk-limit 142: --disk-limit-tmp explicitly set disk-limit for temp. files 142: --size-check switch to control: on=perform size-check 142: (default), off=do not perform size-check, 142: only=perform size-check only 142: --ngc PATH to ngc file 142: 142: -h|--help Output brief explanation for the program. 142: -V|--version Display the version of the program then 142: quit. 142: -L|--log-level Logging level as number or enum string. One 142: of (fatal|sys|int|err|warn|info|debug) or 142: (0-6) Current/default is warn. 142: -v|--verbose Increase the verbosity of the program 142: status messages. Use multiple times for more 142: verbosity. Negates quiet. 142: -q|--quiet Turn off all status messages for the 142: program. Negated by verbose. 142: --option-file Read more options and parameters from the 142: file. 142: for more information visit: 142: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 142: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 142: 142: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 142: 81/187 Test #142: Test_FasterqDump_NotZeroWithoutParameters ......... Passed 0.00 sec test 143 Start 143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id 143: Test command: /usr/bin/bash "test_for_read_id_flat.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 143: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 143: Test timeout computed to be: 1500 143: spots read : 10 143: reads read : 20 143: reads written : 20 143: READ_ID1: 10 143: READ_ID2: 10 143: success testing read-id for --fasta-unsorted mode on flat table 82/187 Test #143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id ... Passed 0.19 sec test 144 Start 144: Test_FasterDump_Fasta_unsorted_cSRA_read_id 144: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump" "bash" "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb"' > tmp.kfg; ./test_for_read_id_cSRA.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 144: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 144: Test timeout computed to be: 1500 144: spots read : 10 144: reads read : 20 144: reads written : 20 144: READ_ID1: 10 144: READ_ID2: 10 144: success testing read-id for --fasta-unsorted mode on cSRA table 83/187 Test #144: Test_FasterDump_Fasta_unsorted_cSRA_read_id ....... Passed 0.51 sec test 145 Start 145: Test_Tiny_cSRA 145: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump" "bash" "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb"' > tmp.kfg; ./tiny_csra.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 145: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 145: Test timeout computed to be: 1500 145: 145: testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump on tiny cSRA-accession 145: spots read : 3 145: reads read : 3 145: reads written : 3 84/187 Test #145: Test_Tiny_cSRA .................................... Passed 0.84 sec test 159 Start 159: SamDumpTestSetup 159: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-sam-dump-test"' > tmp.kfg" 159: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 159: Test timeout computed to be: 1500 85/187 Test #159: SamDumpTestSetup .................................. Passed 0.00 sec test 160 Start 160: Test_sam_dump_verify_omit 160: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./verify_omit_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 160: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 160: Test timeout computed to be: 1500 86/187 Test #160: Test_sam_dump_verify_omit ......................... Passed 1.09 sec test 161 Start 161: Test_sam_dump_star_quality 161: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./print_star_on_missing_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 161: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 161: Test timeout computed to be: 1500 87/187 Test #161: Test_sam_dump_star_quality ........................ Passed 0.84 sec test 162 Start 162: Test_Srapath_Check_exit_code 162: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=../.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath" 162: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath 162: Test timeout computed to be: 1500 162: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath] 88/187 Test #162: Test_Srapath_Check_exit_code ...................... Passed 0.05 sec test 164 Start 164: Test_SraPileup_Check_exit_code 164: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup" 164: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup 164: Test timeout computed to be: 1500 164: WARNING[TEST1] help message is in 'STDOUT' 164: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup] 89/187 Test #164: Test_SraPileup_Check_exit_code .................... Passed 0.09 sec test 168 Start 168: Test_VDB_Config_model 168: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/model.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model" 168: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config 168: Test timeout computed to be: 1500 168: testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model 168: Running 11 test cases... 168: get_config_changed (0 s) 168: prefetch_download_to_cache (0 s) 168: user_accept_aws_charges (0 s) 168: user_accept_gcp_charges (0 s) 168: ./test/external/vdb-config/test-vdb-config-model.cpp:92: fatal error in "temp_cache_location": critical check string ( "path" ) == m . get_temp_cache_location() failed [path != /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/path] 168: temp_cache_location (0 s) 168: gcp_credential_file_location (0 s) 168: aws_credential_file_location (0 s) 168: aws_profile (0 s) 168: noCommit (0 s) 168: Commit (0 s) 168: Reload (0 s) 168: 168: *** 1 failure detected in test suite "VdbConfStridesModelTestSuite" 168: VDB Copy model test is finished 90/187 Test #168: Test_VDB_Config_model ............................. Passed 0.36 sec test 169 Start 169: Test_VDB_Config 169: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 169: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config 169: Test timeout computed to be: 1500 169: Testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config... 169: VDB config test is finished 91/187 Test #169: Test_VDB_Config ................................... Passed 0.17 sec test 170 Start 170: Test_Vdb_dump_Check_exit_code 170: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" 170: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump 170: Test timeout computed to be: 1500 170: WARNING[TEST1] help message is in 'STDOUT' 170: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump] 92/187 Test #170: Test_Vdb_dump_Check_exit_code ..................... Passed 0.09 sec test 171 Start 171: Test_Vdb_dump_view-spec 171: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Vdb_dump_view-spec 171: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump 171: Test timeout computed to be: 1500 171: Running 21 test cases... 171: NullSelf (0 s) 171: NullSpec (0 s) 171: EmptySpec (0 s) 171: NullError (0 s) 171: ZeroSizeError (0 s) 171: MissingLeftAngle (0 s) 171: EmptyAngles (0 s) 171: OneParam (0 s) 171: ManyParams (0 s) 171: MissingComma (0 s) 171: MissingParam (0 s) 171: ExtraChars (0 s) 171: NestedViews (0 s) 171: ViewSpecOpen_NullSelf (0 s) 171: ViewSpecOpen_NullParam_Db (0 s) 171: ViewSpecOpen_NullParam_Schema (0 s) 171: ViewSpecOpen_NullParam_View (0 s) 171: ViewSpecOpen_WrongNumberOfParams (0 s) 171: ViewSpecOpen_ParamNotTable (0 s) 171: MakeCursor (0 s) 171: NestedView (0 s) 171: 171: *** No errors detected (0 s total) 93/187 Test #171: Test_Vdb_dump_view-spec ........................... Passed 0.05 sec test 174 Start 174: Test_VdbValidate_Unit 174: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_VdbValidate_Unit 174: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate 174: Test timeout computed to be: 1500 174: Running 3 test cases... 174: is_sorted_empty (0 s) 174: is_sorted_sorted (0 s) 174: is_sorted_unsorted (0 s) 174: 174: *** No errors detected (0 s total) 94/187 Test #174: Test_VdbValidate_Unit ............................. Passed 0.00 sec test 178 Start 178: Test_Sra_Info_Help 178: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "-h" ">actual/Test_Sra_Info_Help.stdout" 178: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 178: Test timeout computed to be: 1500 178: 178: Usage: 178: sra-info [options] 178: 178: Options: 178: -P|--platform print platform(s) 178: -Q|--quality are quality scores stored or generated 178: -A|--is-aligned is data aligned 178: -C|--schema print schema version and dependencies 178: -S|--spot-layout print spot layout(s). Uses CONSENSUS table 178: if present, SEQUENCE table otherwise 178: -f|--format output format: 178: csv ..... comma separated values on one line 178: xml ..... xml-style 178: json .... json-style 178: tab ..... tab-separated values on one line 178: csv and tab formats can be used just with a single query 178: --schema does npt support csv and tab 178: -l|--limit limit output to elements, e.g. most 178: popular spot layouts; must be positive 178: -D|--detail detail level, <0> the least detailed 178: output; must be or greater 178: -R|--rows report spot layouts for the first rows 178: of the table 178: -h|--help Output brief explanation for the program. 178: -V|--version Display the version of the program then 178: quit. 178: -L|--log-level Logging level as number or enum string. One 178: of (fatal|sys|int|err|warn|info|debug) or 178: (0-6) Current/default is warn. 178: -v|--verbose Increase the verbosity of the program 178: status messages. Use multiple times for more 178: verbosity. Negates quiet. 178: -q|--quiet Turn off all status messages for the 178: program. Negated by verbose. 178: --option-file Read more options and parameters from the 178: file. 178: 178: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info : 3.0.9 178: 95/187 Test #178: Test_Sra_Info_Help ................................ Passed 0.00 sec test 179 Start 179: Test_Sra_Info_NoParam 179: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info 179: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 179: Test timeout computed to be: 1500 179: 179: Usage: 179: sra-info [options] 179: 179: 179: Use option --help for more information. 179: 96/187 Test #179: Test_Sra_Info_NoParam ............................. Passed 0.04 sec test 180 Start 180: Test_Sra_Info_MultipleParams 180: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "SRR000123" "SRR0001234" 180: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 180: Test timeout computed to be: 1500 180: 180: Usage: 180: sra-info [options] 180: 180: 180: Use option --help for more information. 180: 97/187 Test #180: Test_Sra_Info_MultipleParams ...................... Passed 0.04 sec test 181 Start 181: Test_Sra_Info_Limit_Negative 181: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "--spot-layout" "DRR032985" "--limit" "-1" 181: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 181: Test timeout computed to be: 1500 181: 181: 181: invalid value for --limit(not a positive number) 98/187 Test #181: Test_Sra_Info_Limit_Negative ...................... Passed 0.04 sec test 182 Start 182: Test_Sra_Info_Limit_Zero 182: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "--spot-layout" "DRR032985" "--limit" "0" 182: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 182: Test timeout computed to be: 1500 182: 182: 182: invalid value for --limit(not a positive number) 99/187 Test #182: Test_Sra_Info_Limit_Zero .......................... Passed 0.04 sec test 188 Start 188: Test_Sra_Info_Platform_Format_CSV 188: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv" "." "4.1" 188: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 188: Test timeout computed to be: 1500 188: running 4.1 188: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv 1>./actual/4.1/stdout 2>./actual/4.1/stderr 100/187 Test #188: Test_Sra_Info_Platform_Format_CSV ................. Passed 0.21 sec test 189 Start 189: Test_Sra_Info_Platform_Format_XML 189: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml" "." "4.2" 189: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 189: Test timeout computed to be: 1500 189: running 4.2 189: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml 1>./actual/4.2/stdout 2>./actual/4.2/stderr 101/187 Test #189: Test_Sra_Info_Platform_Format_XML ................. Passed 0.27 sec test 190 Start 190: Test_Sra_Info_Platform_Format_Json 190: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json" "." "4.3" 190: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 190: Test timeout computed to be: 1500 190: running 4.3 190: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json 1>./actual/4.3/stdout 2>./actual/4.3/stderr 102/187 Test #190: Test_Sra_Info_Platform_Format_Json ................ Passed 0.29 sec test 191 Start 191: Test_Sra_Info_Platform_Format_Tab 191: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab" "." "4.4" 191: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 191: Test timeout computed to be: 1500 191: running 4.4 191: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab 1>./actual/4.4/stdout 2>./actual/4.4/stderr 103/187 Test #191: Test_Sra_Info_Platform_Format_Tab ................. Passed 0.21 sec test 192 Start 192: Test_Sra_Info_IsAligned_No 192: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123" "." "5.1" 192: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 192: Test timeout computed to be: 1500 192: running 5.1 192: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123 1>./actual/5.1/stdout 2>./actual/5.1/stderr 104/187 Test #192: Test_Sra_Info_IsAligned_No ........................ Passed 1.14 sec test 194 Start 194: Test_Sra_Info_Quality_Physical 194: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra" "." "6.1" 194: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 194: Test timeout computed to be: 1500 194: running 6.1 194: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra 1>./actual/6.1/stdout 2>./actual/6.1/stderr 105/187 Test #194: Test_Sra_Info_Quality_Physical .................... Passed 0.16 sec test 208 Start 208: Test_Sra_Info_Schema_Default 208: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra" "." "9.0" 208: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 208: Test timeout computed to be: 1500 208: running 9.0 208: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra 1>./actual/9.0/stdout 2>./actual/9.0/stderr 106/187 Test #208: Test_Sra_Info_Schema_Default ...................... Passed 0.14 sec test 209 Start 209: Test_Sra_Info_Schema_Json 209: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson" "." "9.1" 209: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 209: Test timeout computed to be: 1500 209: running 9.1 209: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson 1>./actual/9.1/stdout 2>./actual/9.1/stderr 107/187 Test #209: Test_Sra_Info_Schema_Json ......................... Passed 0.13 sec test 210 Start 210: Test_Sra_Info_Schema_Xml 210: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml" "." "9.2" 210: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 210: Test timeout computed to be: 1500 210: running 9.2 210: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml 1>./actual/9.2/stdout 2>./actual/9.2/stderr 108/187 Test #210: Test_Sra_Info_Schema_Xml .......................... Passed 0.12 sec test 211 Start 211: Test_Sra_Info_ACPQS_Default 211: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS" "." "10.0" 211: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 211: Test timeout computed to be: 1500 211: running 10.0 211: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS 1>./actual/10.0/stdout 2>./actual/10.0/stderr 109/187 Test #211: Test_Sra_Info_ACPQS_Default ....................... Passed 0.52 sec test 212 Start 212: Test_Sra_Info_ACPQS_Json 212: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson" "." "10.1" 212: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 212: Test timeout computed to be: 1500 212: running 10.1 212: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson 1>./actual/10.1/stdout 2>./actual/10.1/stderr 110/187 Test #212: Test_Sra_Info_ACPQS_Json .......................... Passed 0.39 sec test 213 Start 213: Test_Sra_Info_ACPQS_Xml 213: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml" "." "10.2" 213: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 213: Test timeout computed to be: 1500 213: running 10.2 213: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml 1>./actual/10.2/stdout 2>./actual/10.2/stderr 111/187 Test #213: Test_Sra_Info_ACPQS_Xml ........................... Passed 0.36 sec test 214 Start 214: BamTestSetup 214: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-bamfload"' > tmp.kfg" 214: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 214: Test timeout computed to be: 1500 112/187 Test #214: BamTestSetup ...................................... Passed 0.00 sec test 215 Start 215: Test_BamLoader_1 215: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra test.sam" 215: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 215: Test timeout computed to be: 1500 113/187 Test #215: Test_BamLoader_1 .................................. Passed 0.26 sec test 216 Start 216: Test_BamLoader_MinBatchSize 216: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size 999999 test.sam" 216: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 216: Test timeout computed to be: 1500 114/187 Test #216: Test_BamLoader_MinBatchSize ....................... Passed 0.26 sec test 217 Start 217: Test_BamLoader_MinBatchSize_Bad 217: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size notanumber test.sam" 217: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 217: Test timeout computed to be: 1500 217: min-batch-size: bad value 217: Usage: 217: bam-load [options] 217: 217: Summary: 217: Load a BAM formatted data file 217: 217: Example: 217: bam-load -o /tmp/SRZ123456 -k analysis.bam.cfg 123456.bam 217: 217: 217: Use option --help for more information. 217: 217: 2025-12-24T07:58:09 bam-load.3.0.9 err: param incorrect while accessing argument list within application support module - load failed 115/187 Test #217: Test_BamLoader_MinBatchSize_Bad ................... Passed 0.03 sec test 218 Start 218: Test_BamLoader_platform 218: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_BamLoader_platform 218: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 218: Test timeout computed to be: 1500 116/187 Test #218: Test_BamLoader_platform ........................... Passed 0.00 sec test 219 Start 219: LatfTestSetup 219: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-latfload"' > tmp.kfg" 219: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 219: Test timeout computed to be: 1500 117/187 Test #219: LatfTestSetup ..................................... Passed 0.00 sec test 220 Start 220: SlowTest_FastqLoader_id2name 220: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/SlowTest_FastqLoader_id2name 220: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 220: Test timeout computed to be: 1500 220: Running 12 test cases... 220: Init_NullSelf (0 s) 220: Whack_NullSelf (0 s) 220: Init_Whack (0 s) 220: Add_NullSelf (0 s) 220: Add_NullName (0 s) 220: Get_NullSelf (0 s) 220: Get_NullRes (0 s) 220: Get_Empty (0 s) 220: Get_Found (0 s) 220: Get_NotFound (0 s) 220: AddMultiple_Get (0 s) 220: AddRealloc (0 s) 220: 220: *** No errors detected (0 s total) 118/187 Test #220: SlowTest_FastqLoader_id2name ...................... Passed 0.01 sec test 221 Start 221: Test_FastqLoader_WbFastq_dflt 221: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastq_dflt 221: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 221: Test timeout computed to be: 1500 221: Running 103 test cases... 221: EmptyFile (0 s) 221: EndLines (0 s) 221: SyntaxError1 (0 s) 221: SyntaxError2 (0 s) 221: RecoveryFromErrorAtTopLevel (0 s) 221: RecoveryFromErrorInHeader (0 s) 221: RecoveryFromErrorInRead (0 s) 221: RecoveryFromErrorInQuality (0 s) 221: ErrorLineNumber (0 s) 221: Tag1 (0 s) 221: Tag2_1 (0 s) 221: Tag2_2 (0 s) 221: Tag3 (0 s) 221: Tag4 (0 s) 221: Tag5 (0 s) 221: Tag6 (0 s) 221: Tag7 (0 s) 221: Tag8 (0 s) 221: Tag9 (0 s) 221: Tag10 (0 s) 221: Tag11 (0 s) 221: Tag12 (0 s) 221: Tag13 (0 s) 221: Tag14 (0 s) 221: Tag15 (0 s) 221: NotRejected (0 s) 221: SequenceNoAlignment (0 s) 221: TestSequenceGetReadLength (0 s) 221: TestSequenceGetReadLength_MultiLine (0 s) 221: TestSequenceGetRead (0 s) 221: TestSequenceGetRead_MultiLine (0 s) 221: TestSequenceGetRead2 (0 s) 221: TestSequenceGetRead2_StopOutOfRange (0 s) 221: TestSequenceGetRead2_StartOutOfRange (0 s) 221: TestSequenceGetRead2_MultiLine_InsideFirstLine (0 s) 221: TestSequenceGetRead2_MultiLine_InsideSecondLine (0 s) 221: TestSequenceGetRead2_MultiLine_AcrossEOL (0 s) 221: TestSequenceGetRead2_MultiLine_StopOutOfRange (0 s) 221: TestSequenceGetRead2_MultiLine_StartOutOfRange (0 s) 221: SequenceGetQuality33 (0 s) 221: SequenceGetQuality64 (0 s) 221: SequenceGetQualityLogOdds (0 s) 221: SequenceBaseSpace (0 s) 221: SequenceColorSpace (0 s) 221: SequenceGetOrientationIsReverse (0 s) 221: ReadNumber (0 s) 221: ReadNumberMissing (0 s) 221: ReadNumberDefault (0 s) 221: ReadNumberOverride (0 s) 221: RunSpotRead (0 s) 221: RunSpotRead_withTail (0 s) 221: RunSpotNothing (0 s) 221: SequenceGetSpotNameIllumina (0 s) 221: SequenceGetSpotGroupIllumina (0 s) 221: SequenceGetSpotGroupIllumina_Ignored (0 s) 221: SequenceGetSpotGroup_Empty (0 s) 221: SequenceGetSpotGroup_Zero (0 s) 221: SequenceGetSpotGroupBarcode (0 s) 221: SequenceGetSpotGroupBarcode_WithPluses (0 s) 221: SequenceGetSpotGroupUnderscore (0 s) 221: HashStyleBarcodeAndReadNumbersAndJunk (0 s) 221: SequenceWasPaired1 (0 s) 221: SequenceWasPaired2 (0 s) 221: SequenceWasPaired3 (0 s) 221: SequenceWasPaired4 (0 s) 221: SequenceWasPaired5 (0 s) 221: SequenceGetSpotNameOneLine (0 s) 221: SequenceGetNameNumeric (0 s) 221: GtStartsQualityOnly (0 s) 221: OneLineRead (0 s) 221: ForcePhredOffset (0 s) 221: IlluminaCasava_1_8 (0 s) 221: IlluminaCasava_1_8_SpotGroupNumber (0 s) 221: IlluminaCasava_1_8_SpotGroup_MoreMadness (0 s) 221: IlluminaCasava_1_8_EmptyTag (0 s) 221: Illumina_NegativeCoords (0 s) 221: Illumina_Underscore (0 s) 221: Illumina_IdentifierAtFront (0 s) 221: Illumina_SpaceAndIdentifierAtFront (0 s) 221: SRR1778155 (0 s) 221: SRA192487 (0 s) 221: NoEolAtEof (0 s) 221: GtStartsReadOnly (0 s) 221: Quality33TooLow (0 s) 221: Quality64TooLow (0 s) 221: QualityLogoddsTooLow (0 s) 221: DecimalQualityRejected (0 s) 221: PacbioRaw (0 s) 221: PacbioCcs (0 s) 221: PacbioNoReadNumbers (0 s) 221: PacbioWsCcs (0 s) 221: PacbioError (0 s) 221: NotPairedRead_Error (0 s) 221: NoFragmentInfo_Error (0 s) 221: NoColonAtTheEnd_Error (0 s) 221: MissingRead (0 s) 221: UnexpectedEOLreported (0 s) 221: AnotherUnexpectedEOLreported (0 s) 221: FastqDumpOutput (0 s) 221: Barcodes_Plus (0 s) 221: Barcodes_Underscore (0 s) 221: FastqMultiLineSequenceFasta (0 s) 221: FastqMultiLineSequenceFastq (0 s) 221: 221: *** No errors detected (0 s total) 119/187 Test #221: Test_FastqLoader_WbFastq_dflt ..................... Passed 0.21 sec test 222 Start 222: Test_FastqLoader_WbFastqParse 222: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqParse 222: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 222: Test timeout computed to be: 1500 222: Running 17 test cases... 222: EmptyInput (0 s) 222: TagLine1 (0 s) 222: SequenceQuality (0 s) 222: QualityOnly (0 s) 222: NoEOL_InQuality (0 s) 222: CRnoLF (0 s) 222: CommaSeparatedQuality3 (0 s) 222: WsBeforeEol (0 s) 222: SkipToEol (0 s) 222: InlineBaseSequence (0 s) 222: BufferBreakInTag (0 s) 222: BufferBreakInMultilineRead (0 s) 222: BufferBreakInMultilineQuality (0 s) 222: ReadNumberNotSeparated (0 s) 222: ReadNumberNotSeparated_Variation (0 s) 222: BarcodesReadNumbersJunkOhMy (0 s) 222: Aviti (0 s) 222: 222: *** No errors detected (0 s total) 120/187 Test #222: Test_FastqLoader_WbFastqParse ..................... Passed 0.01 sec test 223 Start 223: Test_FastqLoader_WbFastqLoader 223: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqLoader 223: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 223: Environment variables: 223: NCBI_SETTINGS=/ 223: VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 223: Test timeout computed to be: 1500 223: Running 14 test cases... 223: CommonWriterOneFile (0 s) 223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_Error (0 s) 223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 warn: Spot 'HWUSI-EAS499:1:3:9:1822' has already been assigned a spot id 223: CommonWriterDuplicateReadnames_Allowed (0 s) 223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_SameFragment (0 s) 223: CommonWriterDuplicateReadnames_DiffFragment (0 s) 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen with mate info, now has no mate info 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_MatedThenUnmated (0 s) 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen without mate info, now has mate info 223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_UnmatedThenMated (0 s) 223: NoSpotAssemply (0 s) 223: NoSpotAssemply_case2 (0 s) 223: Interleaved_OneRead (0 s) 223: Interleaved_MultipleReads (0 s) 223: Interleaved_NoMatch (0 s) 223: Interleaved_1_longer (0 s) 223: Interleaved_2_longer (0 s) 223: 223: *** No errors detected (1 s total) 121/187 Test #223: Test_FastqLoader_WbFastqLoader .................... Passed 1.95 sec test 224 Start 224: Test_FastqLoader_1.1 224: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33" "." "1.1" "0" 224: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 224: Test timeout computed to be: 1500 224: running 1.1 224: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33 -o ./actual/1.1/obj 1>./actual/1.1/load.stdout 2>./actual/1.1/load.stderr 122/187 Test #224: Test_FastqLoader_1.1 .............................. Passed 0.61 sec test 225 Start 225: Test_FastqLoader_1.2 225: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64" "." "1.2" "0" 225: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 225: Test timeout computed to be: 1500 225: running 1.2 225: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64 -o ./actual/1.2/obj 1>./actual/1.2/load.stdout 2>./actual/1.2/load.stderr 123/187 Test #225: Test_FastqLoader_1.2 .............................. Passed 1.26 sec test 226 Start 226: Test_FastqLoader_1.3 226: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33" "." "1.3" "3" 226: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 226: Test timeout computed to be: 1500 226: running 1.3 226: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33 -o ./actual/1.3/obj 1>./actual/1.3/load.stdout 2>./actual/1.3/load.stderr 124/187 Test #226: Test_FastqLoader_1.3 .............................. Passed 0.23 sec test 227 Start 227: Test_FastqLoader_1.4 227: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS" "." "1.4" "0" 227: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 227: Test timeout computed to be: 1500 227: running 1.4 227: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS -o ./actual/1.4/obj 1>./actual/1.4/load.stdout 2>./actual/1.4/load.stderr 125/187 Test #227: Test_FastqLoader_1.4 .............................. Passed 0.42 sec test 228 Start 228: Test_FastqLoader_2.1 228: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33" "." "2.1" "0" 228: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 228: Test timeout computed to be: 1500 228: running 2.1 228: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33 -o ./actual/2.1/obj 1>./actual/2.1/load.stdout 2>./actual/2.1/load.stderr 126/187 Test #228: Test_FastqLoader_2.1 .............................. Passed 0.45 sec test 229 Start 229: Test_FastqLoader_2.5 229: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33" "." "2.5" "0" 229: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 229: Test timeout computed to be: 1500 229: running 2.5 229: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33 -o ./actual/2.5/obj 1>./actual/2.5/load.stdout 2>./actual/2.5/load.stderr 127/187 Test #229: Test_FastqLoader_2.5 .............................. Passed 0.41 sec test 230 Start 230: Test_FastqLoader_2.6 230: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33" "." "2.6" "0" 230: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 230: Test timeout computed to be: 1500 230: running 2.6 230: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33 -o ./actual/2.6/obj 1>./actual/2.6/load.stdout 2>./actual/2.6/load.stderr 128/187 Test #230: Test_FastqLoader_2.6 .............................. Passed 0.37 sec test 231 Start 231: Test_FastqLoader_2.7 231: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33" "." "2.7" "3" 231: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 231: Test timeout computed to be: 1500 231: running 2.7 231: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33 -o ./actual/2.7/obj 1>./actual/2.7/load.stdout 2>./actual/2.7/load.stderr 129/187 Test #231: Test_FastqLoader_2.7 .............................. Passed 0.21 sec test 232 Start 232: Test_FastqLoader_2.7.1 232: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates" "." "2.7.1" "0" 232: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 232: Test timeout computed to be: 1500 232: running 2.7.1 232: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates -o ./actual/2.7.1/obj 1>./actual/2.7.1/load.stdout 2>./actual/2.7.1/load.stderr 130/187 Test #232: Test_FastqLoader_2.7.1 ............................ Passed 0.37 sec test 233 Start 233: Test_FastqLoader_2.8.1 233: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33" "." "2.8.1" "0" 233: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 233: Test timeout computed to be: 1500 233: running 2.8.1 233: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33 -o ./actual/2.8.1/obj 1>./actual/2.8.1/load.stdout 2>./actual/2.8.1/load.stderr 131/187 Test #233: Test_FastqLoader_2.8.1 ............................ Passed 0.40 sec test 234 Start 234: Test_FastqLoader_2.9 234: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33" "." "2.9" "3" 234: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 234: Test timeout computed to be: 1500 234: running 2.9 234: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33 -o ./actual/2.9/obj 1>./actual/2.9/load.stdout 2>./actual/2.9/load.stderr 132/187 Test #234: Test_FastqLoader_2.9 .............................. Passed 0.19 sec test 235 Start 235: Test_FastqLoader_2.9.1 235: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33" "." "2.9.1" "3" 235: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 235: Test timeout computed to be: 1500 235: running 2.9.1 235: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33 -o ./actual/2.9.1/obj 1>./actual/2.9.1/load.stdout 2>./actual/2.9.1/load.stderr 133/187 Test #235: Test_FastqLoader_2.9.1 ............................ Passed 0.18 sec test 236 Start 236: Test_FastqLoader_3.1 236: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33" "." "3.1" "0" 236: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 236: Test timeout computed to be: 1500 236: running 3.1 236: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33 -o ./actual/3.1/obj 1>./actual/3.1/load.stdout 2>./actual/3.1/load.stderr 134/187 Test #236: Test_FastqLoader_3.1 .............................. Passed 0.42 sec test 237 Start 237: Test_FastqLoader_4.1 237: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/4.fastq --tmpfs ./actual -v -o actual/4.1.obj --quality PHRED_33 2>&1 | grep "Path for scratch files: ./actual/key2id"" 237: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 237: Test timeout computed to be: 1500 237: 2025-12-24T07:58:17 latf-load.3.0.9: Path for scratch files: ./actual/key2id.2373356.1 135/187 Test #237: Test_FastqLoader_4.1 .............................. Passed 0.20 sec test 238 Start 238: Test_FastqLoader_4.2 238: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33" "." "4.2" "0" 238: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 238: Test timeout computed to be: 1500 238: running 4.2 238: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33 -o ./actual/4.2/obj 1>./actual/4.2/load.stdout 2>./actual/4.2/load.stderr 136/187 Test #238: Test_FastqLoader_4.2 .............................. Passed 0.37 sec test 239 Start 239: Test_FastqLoader_4.3.1 239: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33" "." "4.3.1" "3" 239: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 239: Test timeout computed to be: 1500 239: running 4.3.1 239: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33 -o ./actual/4.3.1/obj 1>./actual/4.3.1/load.stdout 2>./actual/4.3.1/load.stderr 137/187 Test #239: Test_FastqLoader_4.3.1 ............................ Passed 0.05 sec test 240 Start 240: Test_FastqLoader_4.5 240: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33" "." "4.5" "3" 240: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 240: Test timeout computed to be: 1500 240: running 4.5 240: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33 -o ./actual/4.5/obj 1>./actual/4.5/load.stdout 2>./actual/4.5/load.stderr 138/187 Test #240: Test_FastqLoader_4.5 .............................. Passed 0.18 sec test 241 Start 241: Test_FastqLoader_4.5.2 241: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2" "." "4.5.2" "3" 241: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 241: Test timeout computed to be: 1500 241: running 4.5.2 241: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2 -o ./actual/4.5.2/obj 1>./actual/4.5.2/load.stdout 2>./actual/4.5.2/load.stderr 139/187 Test #241: Test_FastqLoader_4.5.2 ............................ Passed 0.18 sec test 242 Start 242: Test_FastqLoader_4.6 242: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33" "." "4.6" "0" 242: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 242: Test timeout computed to be: 1500 242: running 4.6 242: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33 -o ./actual/4.6/obj 1>./actual/4.6/load.stdout 2>./actual/4.6/load.stderr 140/187 Test #242: Test_FastqLoader_4.6 .............................. Passed 0.38 sec test 243 Start 243: Test_FastqLoader_4.6.1 243: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33" "." "4.6.1" "3" 243: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 243: Test timeout computed to be: 1500 243: running 4.6.1 243: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33 -o ./actual/4.6.1/obj 1>./actual/4.6.1/load.stdout 2>./actual/4.6.1/load.stderr 141/187 Test #243: Test_FastqLoader_4.6.1 ............................ Passed 0.05 sec test 244 Start 244: Test_FastqLoader_4.7 244: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33" "." "4.7" "3" 244: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 244: Test timeout computed to be: 1500 244: running 4.7 244: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33 -o ./actual/4.7/obj 1>./actual/4.7/load.stdout 2>./actual/4.7/load.stderr 142/187 Test #244: Test_FastqLoader_4.7 .............................. Passed 0.23 sec test 245 Start 245: Test_FastqLoader_4.8 245: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames" "." "4.8" "0" 245: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 245: Test timeout computed to be: 1500 245: running 4.8 245: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames -o ./actual/4.8/obj 1>./actual/4.8/load.stdout 2>./actual/4.8/load.stderr 143/187 Test #245: Test_FastqLoader_4.8 .............................. Passed 0.41 sec test 246 Start 246: Test_FastqLoader_5.0 246: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33" "." "5.0" "0" 246: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 246: Test timeout computed to be: 1500 246: running 5.0 246: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33 -o ./actual/5.0/obj 1>./actual/5.0/load.stdout 2>./actual/5.0/load.stderr 144/187 Test #246: Test_FastqLoader_5.0 .............................. Passed 0.37 sec test 247 Start 247: Test_FastqLoader_6.0 247: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33" "." "6.0" "0" 247: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 247: Test timeout computed to be: 1500 247: running 6.0 247: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33 -o ./actual/6.0/obj 1>./actual/6.0/load.stdout 2>./actual/6.0/load.stderr 145/187 Test #247: Test_FastqLoader_6.0 .............................. Passed 0.39 sec test 248 Start 248: Test_FastqLoader_7.1 248: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33" "." "7.1" "0" 248: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 248: Test timeout computed to be: 1500 248: running 7.1 248: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.1/obj 1>./actual/7.1/load.stdout 2>./actual/7.1/load.stderr 146/187 Test #248: Test_FastqLoader_7.1 .............................. Passed 0.37 sec test 249 Start 249: Test_FastqLoader_7.2 249: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33" "." "7.2" "0" 249: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 249: Test timeout computed to be: 1500 249: running 7.2 249: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.2/obj 1>./actual/7.2/load.stdout 2>./actual/7.2/load.stderr 147/187 Test #249: Test_FastqLoader_7.2 .............................. Passed 0.38 sec test 250 Start 250: Test_FastqLoader_7.3 250: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33" "." "7.3" "0" 250: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 250: Test timeout computed to be: 1500 250: running 7.3 250: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.3/obj 1>./actual/7.3/load.stdout 2>./actual/7.3/load.stderr 148/187 Test #250: Test_FastqLoader_7.3 .............................. Passed 0.47 sec test 251 Start 251: Test_FastqLoader_8.0 251: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33" "." "8.0" "0" 251: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 251: Test timeout computed to be: 1500 251: running 8.0 251: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33 -o ./actual/8.0/obj 1>./actual/8.0/load.stdout 2>./actual/8.0/load.stderr 149/187 Test #251: Test_FastqLoader_8.0 .............................. Passed 0.88 sec test 252 Start 252: Test_FastqLoader_8.1 252: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33" "." "8.1" "3" 252: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 252: Test timeout computed to be: 1500 252: running 8.1 252: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33 -o ./actual/8.1/obj 1>./actual/8.1/load.stdout 2>./actual/8.1/load.stderr 150/187 Test #252: Test_FastqLoader_8.1 .............................. Passed 0.19 sec test 253 Start 253: Test_FastqLoader_9.0 253: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33" "." "9.0" "0" 253: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 253: Test timeout computed to be: 1500 253: running 9.0 253: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33 -o ./actual/9.0/obj 1>./actual/9.0/load.stdout 2>./actual/9.0/load.stderr 151/187 Test #253: Test_FastqLoader_9.0 .............................. Passed 0.37 sec test 254 Start 254: Test_FastqLoader_10.0 254: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33" "." "10.0" "0" 254: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 254: Test timeout computed to be: 1500 254: running 10.0 254: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33 -o ./actual/10.0/obj 1>./actual/10.0/load.stdout 2>./actual/10.0/load.stderr 152/187 Test #254: Test_FastqLoader_10.0 ............................. Passed 0.39 sec test 255 Start 255: Test_FastqLoader_11.0 255: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33" "." "11.0" "0" 255: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 255: Test timeout computed to be: 1500 255: running 11.0 255: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33 -o ./actual/11.0/obj 1>./actual/11.0/load.stdout 2>./actual/11.0/load.stderr 153/187 Test #255: Test_FastqLoader_11.0 ............................. Passed 0.39 sec test 256 Start 256: Test_FastqLoader_11.1 256: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33" "." "11.1" "0" 256: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 256: Test timeout computed to be: 1500 256: running 11.1 256: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33 -o ./actual/11.1/obj 1>./actual/11.1/load.stdout 2>./actual/11.1/load.stderr 154/187 Test #256: Test_FastqLoader_11.1 ............................. Passed 0.37 sec test 257 Start 257: Test_FastqLoader_12.0 257: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags" "." "12.0" "0" 257: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 257: Test timeout computed to be: 1500 257: running 12.0 257: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags -o ./actual/12.0/obj 1>./actual/12.0/load.stdout 2>./actual/12.0/load.stderr 155/187 Test #257: Test_FastqLoader_12.0 ............................. Passed 0.37 sec test 258 Start 258: Test_FastqLoader_12.1 258: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33" "." "12.1" "0" 258: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 258: Test timeout computed to be: 1500 258: running 12.1 258: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33 -o ./actual/12.1/obj 1>./actual/12.1/load.stdout 2>./actual/12.1/load.stderr 156/187 Test #258: Test_FastqLoader_12.1 ............................. Passed 0.38 sec test 259 Start 259: Test_FastqLoader_12.2 259: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33" "." "12.2" "0" 259: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 259: Test timeout computed to be: 1500 259: running 12.2 259: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33 -o ./actual/12.2/obj 1>./actual/12.2/load.stdout 2>./actual/12.2/load.stderr 157/187 Test #259: Test_FastqLoader_12.2 ............................. Passed 0.41 sec test 260 Start 260: Test_FastqLoader_13.0 260: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33" "." "13.0" "0" 260: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 260: Test timeout computed to be: 1500 260: running 13.0 260: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33 -o ./actual/13.0/obj 1>./actual/13.0/load.stdout 2>./actual/13.0/load.stderr 158/187 Test #260: Test_FastqLoader_13.0 ............................. Passed 0.37 sec test 261 Start 261: Test_FastqLoader_13.1 261: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33" "." "13.1" "0" 261: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 261: Test timeout computed to be: 1500 261: running 13.1 261: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33 -o ./actual/13.1/obj 1>./actual/13.1/load.stdout 2>./actual/13.1/load.stderr 159/187 Test #261: Test_FastqLoader_13.1 ............................. Passed 0.41 sec test 262 Start 262: Test_FastqLoader_14.0 262: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33" "." "14.0" "0" 262: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 262: Test timeout computed to be: 1500 262: running 14.0 262: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33 -o ./actual/14.0/obj 1>./actual/14.0/load.stdout 2>./actual/14.0/load.stderr 160/187 Test #262: Test_FastqLoader_14.0 ............................. Passed 0.36 sec test 263 Start 263: Test_FastqLoader_15.0 263: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump -x READ_SEG" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33" "." "15.0" "0" 263: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 263: Test timeout computed to be: 1500 263: running 15.0 263: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33 -o ./actual/15.0/obj 1>./actual/15.0/load.stdout 2>./actual/15.0/load.stderr 161/187 Test #263: Test_FastqLoader_15.0 ............................. Passed 0.43 sec test 264 Start 264: Test_FastqLoader_16.0 264: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO" "." "16.0" "0" 264: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 264: Test timeout computed to be: 1500 264: running 16.0 264: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO -o ./actual/16.0/obj 1>./actual/16.0/load.stdout 2>./actual/16.0/load.stderr 162/187 Test #264: Test_FastqLoader_16.0 ............................. Passed 0.40 sec test 265 Start 265: Test_FastqLoader_16.1 265: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO" "." "16.1" "0" 265: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 265: Test timeout computed to be: 1500 265: running 16.1 265: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO -o ./actual/16.1/obj 1>./actual/16.1/load.stdout 2>./actual/16.1/load.stderr 163/187 Test #265: Test_FastqLoader_16.1 ............................. Passed 0.41 sec test 266 Start 266: Test_FastqLoader_17.0 266: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33" "." "17.0" "3" 266: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 266: Test timeout computed to be: 1500 266: running 17.0 266: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33 -o ./actual/17.0/obj 1>./actual/17.0/load.stdout 2>./actual/17.0/load.stderr 164/187 Test #266: Test_FastqLoader_17.0 ............................. Passed 0.18 sec test 267 Start 267: Test_FastqLoader_18.0 267: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33" "." "18.0" "3" 267: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 267: Test timeout computed to be: 1500 267: running 18.0 267: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33 -o ./actual/18.0/obj 1>./actual/18.0/load.stdout 2>./actual/18.0/load.stderr 165/187 Test #267: Test_FastqLoader_18.0 ............................. Passed 0.18 sec test 269 Start 269: Test_KAPP_qfile 269: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KAPP_qfile 269: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 269: Test timeout computed to be: 1500 269: start-position : 0 269: queue-size : 1024 269: block-size : 0 269: chunk-size : 1024 166/187 Test #269: Test_KAPP_qfile ................................... Passed 0.00 sec test 270 Start 270: Test_LOADERFILE 270: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADERFILE 270: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 270: Test timeout computed to be: 1500 270: Running 5 test cases... 270: KQueueFile_ReadTimeout_FGsleeps (2 s) 270: KQueueFile_ReadTimeout_BGsleeps (3 s) 270: KQueueFile_WriteTimeout (2 s) 270: KLoaderFile_eolBeforeEof (0 s) 270: KLoaderFile_noEolBeforeEof (0 s) 270: 270: *** No errors detected (7 s total) 167/187 Test #270: Test_LOADERFILE ................................... Passed 7.01 sec test 271 Start 271: Test_LOADER 271: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADER 271: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 271: Test timeout computed to be: 1500 271: Running 2 test cases... 271: LoaderMeta_Write (0 s) 271: LoaderMeta_WriteWithVersion (0 s) 271: 271: *** No errors detected (0 s total) 168/187 Test #271: Test_LOADER ....................................... Passed 0.04 sec test 272 Start 272: Test_sra_sort_meta_copy 272: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort/sra_sort_meta_copy.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 272: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort 272: Test timeout computed to be: 1500 272: Files before.xml and after.xml are identical 169/187 Test #272: Test_sra_sort_meta_copy ........................... Passed 4.85 sec test 273 Start 273: Test_Align_samextract 273: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Align_samextract 273: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align 273: Test timeout computed to be: 1500 273: Running 14 test cases... 273: Test_Qual_Decode (0 s) 273: Fast_Sequence (0 s) 273: Fast_u32toa (0 s) 273: Fast_i32toa (0 s) 273: Fast_strtoi64 (0 s) 273: Decode_Cigar (0 s) 273: Check_Cigar (0 s) 273: In_Range (0 s) 273: Is_MD5 (0 s) 273: Is_floworder (0 s) 273: header1 (0 s) 273: BAMfile (0 s) 273: Filter (0 s) 273: None of below files should hang: 273: fuzz/id000000,sig11,src000036,ophavoc,rep128 273: fuzz/id000000,src000000+000001,opsplice,rep16 273: fuzz/id000000,src000000,oparith8,pos3,val+10 273: fuzz/id000001,src000001,oparith16,pos10,val-6 273: fuzz/id000001,src000001,oparith8,pos10,val+9 273: fuzz/id000001,src000003,ophavoc,rep2 273: fuzz/id000002,src000000+000006,opsplice,rep64 273: fuzz/id000002,src000001,oparith8,pos10,val-31 273: fuzz/id000002,src000001,ophavoc,rep4 273: fuzz/id000003,src000001,ophavoc,rep2 273: fuzz/id000003,src000001,ophavoc,rep8 273: fuzz/id000003,src000007,ophavoc,rep2 273: fuzz/id000004,src000001,ophavoc,rep2 273: fuzz/id000004,src000001,ophavoc,rep32 273: fuzz/id000004,src000012,ophavoc,rep8 273: fuzz/id000005,src000001,ophavoc,rep2 273: fuzz/id000005,src000001,ophavoc,rep8 273: fuzz/id000005,src000013+000012,opsplice,rep4 273: fuzz/id000006,src000001,ophavoc,rep2 273: fuzz/id000006,src000001,ophavoc,rep4 273: fuzz/id000006,src000014,ophavoc,rep2 273: fuzz/id000007,src000002,opflip1,pos4 273: fuzz/id000007,src000023,ophavoc,rep4 273: fuzz/id000008,src000002,opflip1,pos8 273: fuzz/id000008,src000029,ophavoc,rep64 273: fuzz/id000009,src000002,opflip1,pos22 273: fuzz/id000009,src000031,ophavoc,rep2 273: fuzz/id000010,src000002,opflip1,pos25 273: fuzz/id000010,src000037+000017,opsplice,rep2 273: fuzz/id000011,src000002,opflip1,pos33 273: fuzz/id000011,src000046,ophavoc,rep2 273: fuzz/id000012,src000002,opflip4,pos20 273: fuzz/id000012,src000049,ophavoc,rep4 273: fuzz/id000013,src000002,opflip4,pos38 273: fuzz/id000013,src000048,ophavoc,rep2 273: fuzz/id000014,src000002,opflip4,pos76 273: fuzz/id000014,src000021+000026,opsplice,rep2 273: fuzz/id000015,src000002,opflip8,pos25 273: fuzz/id000015,src000056,ophavoc,rep2 273: fuzz/id000016,src000002,opint16,pos77,val-129 273: fuzz/id000016,src000002,opint8,pos14,val-1 273: fuzz/id000017,src000002,ophavoc,rep32 273: fuzz/id000017,src000002,opint16,pos77,val-129 273: fuzz/id000018,src000002,opint32,pos25,val+2147483647 273: fuzz/id000018,src000003,opint16,pos3,val-129 273: fuzz/id000019,src000002,opint32,pos33,valbe-128 273: fuzz/id000019,src000007,opflip16,pos33 273: fuzz/id000020,src000002,ophavoc,rep4 273: fuzz/id000020,src000007,opint16,pos117,val-129 273: fuzz/id000021,src000004,opint16,pos4,val+32767 273: fuzz/id000021,src000011,opflip4,pos76 273: fuzz/id000022,src000004,ophavoc,rep16 273: fuzz/id000022,src000011,opflip4,pos116 273: fuzz/id000023,src000011,opflip4,pos116 273: fuzz/id000023,src000018,opflip1,pos15 273: fuzz/id000024,src000011,opflip16,pos52 273: fuzz/id000024,src000018,opflip1,pos26 273: fuzz/id000025,src000018,opflip1,pos15 273: fuzz/id000025,src000018,opflip4,pos92 273: fuzz/id000026,src000018,opflip1,pos26 273: fuzz/id000026,src000018,opflip4,pos137 273: fuzz/id000027,src000018,opflip4,pos24 273: fuzz/id000028,src000018,opflip4,pos92 273: fuzz/id000029,src000018,opflip4,pos137 273: fuzz/id000030,src000018,opint16,pos138,val-129 273: fuzz/id000031,src000018,ophavoc,rep8 273: 273: Fuzz_Hangs (0 s) 273: 273: *** No errors detected (0 s total) 170/187 Test #273: Test_Align_samextract ............................. Passed 0.58 sec test 275 Start 275: Test_Align_Cache 275: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache/runtest.sh "/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "align-cache" 275: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache 275: Test timeout computed to be: 1500 275: testing align-cache 171/187 Test #275: Test_Align_Cache .................................. Passed 0.51 sec test 276 Start 276: Test_KFF 276: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KFF 276: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 276: Test timeout computed to be: 1500 276: Running 2 test cases... 276: ExtFileFormat (0 s) 276: MagicFileFormat (0 s) 276: 276: *** No errors detected (0 s total) 172/187 Test #276: Test_KFF .......................................... Passed 0.01 sec test 277 Start 277: Test_Copycat_Help 277: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat "-h" 277: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 277: Test timeout computed to be: 1500 277: 277: Usage: 277: copycat [options] src-file dst-file 277: copycat [options] src-file [src-file...] dst-dir 277: copycat [options] -o dst-dir src-file [src-file...] 277: 277: Summary: 277: Copies files and/or directories, creating a catalog of the copied files. 277: -x|--cache-dir location of output cached files 277: -f|--force force overwrite of existing files 277: -o|--output location of output 277: -e|--extract location of extracted files 277: -E|--extract-to-dir extracted directories match normal XML 277: -X|--xml-dir XML matches extracted files 277: --input-buffer system file reads are of blocks of this size 277: --output-buffer system file writes are of blocks of this 277: size 277: --no-bzip2 do not decompress files compressed with 277: bzip2 277: --no-md5 do not calculate md5 hashes 277: -h|--help Output brief explanation for the program. 277: -V|--version Display the version of the program then 277: quit. 277: -L|--log-level Logging level as number or enum string. One 277: of (fatal|sys|int|err|warn|info|debug) or 277: (0-6) Current/default is warn. 277: -v|--verbose Increase the verbosity of the program 277: status messages. Use multiple times for more 277: verbosity. Negates quiet. 277: -q|--quiet Turn off all status messages for the 277: program. Negated by verbose. 277: --option-file Read more options and parameters from the 277: file. 277: Use: 277: Copy and catalog: 277: Some quick examples: 277: copycat dir/file.tar other-dir/file.tar 277: copy file.tar from dir to other-dir and write the catalog to stdout 277: copycat dir/file.tar otherdir/ 277: the same 277: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw other-dir.file.tar 277: copy and decrypt file.tar.nenc from dir to other-dir and catalog 277: copycat dir/file.tar "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw 277: copy and encrypt file.tar from dir to other-dir/file.tar.nenc and catalog 277: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw1 \ 277: "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw2 277: copy the file as above while changing the encryption 277: 277: Use: 277: Copy source file[s] to a destination file or directory. 277: File names can either be typical path names or they can be URLs (IRLs) using 277: the standard "file" or extended "ncbi-file" schemes. 277: The catalog is XML output sent by default to stdout. 277: As UTF-8 is accepted in the paths they are IRLs for International Resource 277: Locators. 277: 277: If the specified destination does not exist, there could be an ambiguity 277: whether the destination is supposed to be a file or directory. If the 277: entered path ends in a '/' character or if there is more than one source 277: it is assumed to mean a directory and is created as such. If neither of 277: of those apply it is assumed to be a file. 277: 277: The sources or destination may also be special Unix devices: 277: /dev/stdin is supported as a source. 277: /dev/stdout and /dev/stderr is supported as a destination. 277: Other file descriptor devices can be used in the form: 277: /dev/fd/ 277: For example /dev/stdin is synonymous with /dev/fd/0 as a source. 277: If /dev/stdout or /dev/fd/1 is used as the destination then the XML 277: output is redirected to /dev/stderr (/dev/fd/2). 277: Device /dev/null as the destination is treated as a file with only one 277: source but as a directory if more than one source. Using this device 277: means no actual file will be copied but the cataloging will be done but 277: xml-base-node must be used. 277: 277: These special devices can be entered using the URL (IRL) schemes if 277: desired. This allows the use of 'query' decorators. 277: 277: If a query is added to the URL it will need to be enclosed within '"' 277: characters on a command line to prevent premature interpretation. 277: The query for the 'ncbi-file' extension to the 'file' scheme allows 277: encryption and decryption. The supported query is introduced by the 277: standard URI/IRI syntax of a '?' character with a '&' character 277: separating individual query-entries. 277: 277: The supported query entries are: 277: 'encrypt' or 'enc' to mean the input may be encrypted or the output 277: will be encrypted, 277: 'pwfile=' gives the path to file containing the password. 277: 'pwfd=' gives the numerical file descriptor from which to read 277: the password, 277: 277: In this program the encrypted input can apply to a file contained within 277: the source rather than just the source file itself. The tool is fully 277: compatible with all versions of NCBI encryption. 277: 277: If the output is to be encrypted only the newer FIPS compliant encryption 277: will be used and applies to the whole file. 277: 277: NOTE: Not all combinations of URL specifications will work at this point. 277: 277: NOTE: using the same file descriptor for multiple sources or overlapping with 277: stdin/stdout/stderr may cause undefined behavior including hanging the 277: the program. 277: 277: The '-x' option allows small files that are typed as eligible for 277: caching to be copied to the cache directory provided. the directory 277: will be created if necessary. 277: the intent is to capture top-level files, such that files are copied 277: into the flat cache directory without regard to where they were found 277: in the input hierarchy. in the case of name conflict, output files will 277: be renamed. 277: 277: To prevent internal decompression of bzipped files, use the option 277: '--no-bzip2' 277: 277: To prevent calculation of MD5 hashes, use the option 277: '--no-md5' 277: 277: 277: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat : 3.0.9 277: 173/187 Test #277: Test_Copycat_Help ................................. Passed 0.00 sec test 278 Start 278: Test_Copycat_Bad_Name 278: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-bad-name.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 278: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 278: Test timeout computed to be: 1500 278: testing copycat expected output for file name with % 278: copycat test file name with % succeeded 174/187 Test #278: Test_Copycat_Bad_Name ............................. Passed 0.05 sec test 279 Start 279: Test_Copycat_IdenticalCopy 279: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-copy.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 279: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 279: Test timeout computed to be: 1500 279: testing copycat copy 279: copycat copy succeeded 175/187 Test #279: Test_Copycat_IdenticalCopy ........................ Passed 0.05 sec test 280 Start 280: Test_Copycat_FastqParser 280: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-fastq.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 280: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 280: Test timeout computed to be: 1500 280: testing copycat fastq parser 280: copycat fastq parser succeeded 176/187 Test #280: Test_Copycat_FastqParser .......................... Passed 0.41 sec test 281 Start 281: Test_MakeReadFilter 281: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "/usr/bin/cmake" "-E" "env" "NCBI_SETTINGS=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/tmp.mkfg" "/usr/bin/cmake" "-E" "env" "VDB_LIBRARY_PATH=/usr/lib/x86_64-linux-gnu" "./runtest.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/usr/lib/x86_64-linux-gnu" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "" 281: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter 281: Test timeout computed to be: 1500 281: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /usr/lib/x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp 177/187 Test #281: Test_MakeReadFilter ............................... Passed 1.10 sec test 282 Start 282: Test_Read_filter_redact_Check_exit_code 282: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact" 282: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 282: Test timeout computed to be: 1500 282: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact] 178/187 Test #282: Test_Read_filter_redact_Check_exit_code ........... Passed 0.06 sec test 283 Start 283: Test_Read_filter_redact 283: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact/runtests.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "read-filter-redact" 283: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 283: Test timeout computed to be: 1500 283: Testing read-filter-redact from /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin 179/187 Test #283: Test_Read_filter_redact ........................... Passed 0.54 sec test 284 Start 284: Test_VDB_Copy_Check_exit_code 284: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy" 284: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 284: Test timeout computed to be: 1500 284: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy] 180/187 Test #284: Test_VDB_Copy_Check_exit_code ..................... Passed 0.05 sec test 286 Start 286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession 286: Test command: /usr/bin/bash "-c" "./return_code_on_error.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 286: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 286: Test timeout computed to be: 1500 286: 2025-12-24T07:58:42 vdb-copy.3.0.9 int: item not found while copying within virtual database module - the path 'NOT_EXISTING_DIR' cannot be opened as vdb-database or vdb-table 286: SUCCESS: vdb-copy returned 3 if ask to copy a none-existing object. 181/187 Test #286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession .... Passed 0.05 sec test 288 Start 288: Test_VDB_Diff_Check_exit_code 288: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff" 288: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff 288: Test timeout computed to be: 1500 288: WARNING[TEST1] help message is in 'STDOUT' 288: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff] 182/187 Test #288: Test_VDB_Diff_Check_exit_code ..................... Passed 0.04 sec test 291 Start 291: Test_qa-stat 291: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/test-tools/qa-stats/runtests.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats" 291: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/test-tools/qa-stats 291: Test timeout computed to be: 1500 291: Testing with default parameters. 291: Testing with one biological read. 291: Testing with one technical read. 291: Testing with two biological read. 291: Testing with one biological and one technical read. 291: Testing with multiple layouts. 183/187 Test #291: Test_qa-stat ...................................... Passed 2.70 sec test 292 Start 292: Test_Scripts_prepare-sra-names 292: Test command: /usr/bin/perl "test-prepare-sra-names.pl" 292: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 292: Test timeout computed to be: 1500 184/187 Test #292: Test_Scripts_prepare-sra-names .................... Passed 0.11 sec test 293 Start 293: Test_Scripts_fix-sra-names 293: Test command: /usr/bin/perl "test-fix-sra-names.pl" 293: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 293: Test timeout computed to be: 1500 185/187 Test #293: Test_Scripts_fix-sra-names ........................ Passed 0.05 sec test 294 Start 294: Test_Scripts_prepare-sra-names-py 294: Test command: /usr/bin/perl "test-prepare-sra-names-py.pl" 294: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 294: Test timeout computed to be: 1500 186/187 Test #294: Test_Scripts_prepare-sra-names-py ................. Passed 0.53 sec test 295 Start 295: Test_Scripts_fix-sra-names-py 295: Test command: /usr/bin/perl "test-fix-sra-names-py.pl" 295: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 295: Test timeout computed to be: 1500 187/187 Test #295: Test_Scripts_fix-sra-names-py ..................... Passed 0.26 sec 100% tests passed, 0 tests failed out of 187 Total Test time (real) = 69.14 sec make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake debian/rules override_dh_prep make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_prep -X debian/tmp make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_install cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/sra-sdk-3.0.9\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/default.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/certs.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/vdb-copy.kfg': No such file or directory -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ncbi-vdb/NGS.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/FragTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/AlignTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/AlignSliceTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/PileupTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/RefTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/DumpReferenceFASTA.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/expected.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/Makefile -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/README.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libngs-c++.so -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/arm64 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/arm64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/fat86 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/fat86/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Reference.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Fragment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Alignment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/AlignmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/FragmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Pileup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadCollection.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Read.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceSequence.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Reference.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Fragment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Alignment.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReferenceIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/AlignmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/stdbool.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/FragmentIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Pileup.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadCollection.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Read.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/defs.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadGroupItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.hpp -- Installing: 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/README.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/expected.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-examples.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/search.js -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.js -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-3.7.1.min.js -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.css -- Installing: 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-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/index-all.html -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-doc.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-src.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/AlignTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/AlignSliceTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/FragTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/PileupTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/RefTest.py -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/expected.txt -- Installing: 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Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fasterq-dump.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fasterq-dump-orig.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fasterq-dump.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump-orig.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-dump.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-validate.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-validate.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-validate -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-corrupt.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-corrupt.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-corrupt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-decrypt.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-decrypt.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-decrypt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-encrypt.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-encrypt.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-encrypt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srapath -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srapath.3 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Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/var-expand.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/var-expand -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-search.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-search.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-search -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-sra.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-sra.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-sra -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview.3 -- Installing: 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-read-write-cursor -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' # build/install.sh /usr/include/ncbi-vdb/kfg/ncbi \ # /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/usr/bin \ # debian/sra-toolkit/usr/lib/x86_64-linux-gnu \ # /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/kfgsums build/install-kfg.sh default.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh certs.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy \ debian/sra-toolkit/etc/ncbi /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/kfgsums d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a*" \ usr/lib/x86_64-linux-gnu \ --override "s/libncbi-vdb3-dev/libncbi-vdb-dev/" \ debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.so Library package automatic movement utility --> libncbi-vdb-dev package exists. set -e install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.0.9 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu PKGDEV=libncbi-ngs-dev PKGSHL=libncbi-ngs3 install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a* debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/lib*c++.a*" \ usr/lib/x86_64-linux-gnu \ --movedev "debian/tmp/usr/include/*" usr/include \ --ignorelibdep \ debian/*/usr/lib/x86_64-linux-gnu/libngs-c++.so | \ tee /dev/stderr | LC_ALL=C grep '^[a-z]' | sh tee: /dev/stderr: Permission denied Error occurred, aborting make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' # upstream installs versioned *.a libs - we only want a single version for d in debian/lib*-dev/usr/lib/x86_64-linux-gnu ; do \ for slib in $d/lib*.a ; do \ mv $d/`readlink $slib` $slib ; \ mv $d/`readlink $slib` $slib ; \ done ; \ done ls -l debian/tmp/usr/bin total 66484 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 abi-dump -> abi-dump.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 abi-dump.3 -> abi-dump.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 269416 Dec 23 19:56 abi-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 abi-load -> abi-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 abi-load.3 -> abi-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 641128 Dec 23 19:56 abi-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 align-cache -> align-cache.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 align-cache.3 -> align-cache.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 249136 Dec 23 19:56 align-cache.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 align-info -> align-info.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 align-info.3 -> align-info.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 97336 Dec 23 19:56 align-info.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 bam-load -> bam-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 bam-load.3 -> bam-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 12839712 Dec 23 19:57 bam-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 cache-mgr -> cache-mgr.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 cache-mgr.3 -> cache-mgr.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 124680 Dec 23 19:56 cache-mgr.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 ccextract -> ccextract.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 ccextract.3 -> ccextract.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 272968 Dec 23 19:56 ccextract.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 cg-load -> cg-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 cg-load.3 -> cg-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 657864 Dec 23 19:56 cg-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 check-corrupt -> check-corrupt.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 check-corrupt.3 -> check-corrupt.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 240184 Dec 23 19:56 check-corrupt.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 check-redact -> check-redact.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 check-redact.3 -> check-redact.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 97824 Dec 23 19:56 check-redact.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 copycat -> copycat.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 copycat.3 -> copycat.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 484080 Dec 23 19:56 copycat.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 crc32sum -> crc32sum.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 crc32sum.3 -> crc32sum.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 79384 Dec 23 19:56 crc32sum.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 22 Dec 23 19:58 dump-blob-boundaries -> dump-blob-boundaries.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 26 Dec 23 19:58 dump-blob-boundaries.3 -> dump-blob-boundaries.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 31552 Dec 23 19:56 dump-blob-boundaries.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 fastconv -> fastconv.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fastconv.3 -> fastconv.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 5034112 Dec 23 19:57 fastconv.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fasterq-dump -> fasterq-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 907712 Dec 23 19:56 fasterq-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 fasterq-dump.3 -> fasterq-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fasterq-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 fastq-dump -> fastq-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 349584 Dec 23 19:56 fastq-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 fastq-dump.3 -> fastq-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fastq-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 fastq-load -> fastq-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 fastq-load.3 -> fastq-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 701176 Dec 23 19:56 fastq-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 general-loader -> general-loader.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 general-loader.3 -> general-loader.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 1362776 Dec 23 19:56 general-loader.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 helicos-load -> helicos-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 helicos-load.3 -> helicos-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 607320 Dec 23 19:56 helicos-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 illumina-dump -> illumina-dump.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 illumina-dump.3 -> illumina-dump.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 255528 Dec 23 19:56 illumina-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 illumina-load -> illumina-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 illumina-load.3 -> illumina-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 657584 Dec 23 19:56 illumina-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 5 Dec 23 19:58 kar -> kar.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 6 Dec 23 19:58 kar+ -> kar+.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 kar+.3 -> kar+.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 237952 Dec 23 19:56 kar+.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 kar+meta -> kar+meta.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 kar+meta.3 -> kar+meta.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 159056 Dec 23 19:56 kar+meta.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 kar.3 -> kar.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 191112 Dec 23 19:56 kar.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 kdb-index -> kdb-index.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 kdb-index.3 -> kdb-index.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 78400 Dec 23 19:56 kdb-index.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 kdbmeta -> kdbmeta.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 kdbmeta.3 -> kdbmeta.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 124344 Dec 23 19:56 kdbmeta.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 latf-load -> latf-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 latf-load.3 -> latf-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 508096 Dec 23 19:56 latf-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 make-read-filter -> make-read-filter.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 22 Dec 23 19:58 make-read-filter.3 -> make-read-filter.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 158736 Dec 23 19:56 make-read-filter.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 7 Dec 23 19:58 md5cp -> md5cp.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 md5cp.3 -> md5cp.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 89664 Dec 23 19:56 md5cp.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 meta-cmp -> meta-cmp.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 meta-cmp.3 -> meta-cmp.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 82024 Dec 23 19:56 meta-cmp.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 meta-copy -> meta-copy.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 meta-copy.3 -> meta-copy.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 81952 Dec 23 19:56 meta-copy.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 meta-repair -> meta-repair.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 meta-repair.3 -> meta-repair.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 135992 Dec 23 19:56 meta-repair.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 ngs-pileup -> ngs-pileup.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 ngs-pileup.3 -> ngs-pileup.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2547992 Dec 23 19:56 ngs-pileup.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 pacbio-correct -> pacbio-correct.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 pacbio-correct.3 -> pacbio-correct.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 76024 Dec 23 19:56 pacbio-correct.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 pacbio-load -> pacbio-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 pacbio-load.3 -> pacbio-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 476864 Dec 23 19:56 pacbio-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 pacbio-loadxml -> pacbio-loadxml.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 pacbio-loadxml.3 -> pacbio-loadxml.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 590968 Dec 23 19:56 pacbio-loadxml.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 pileup-stats -> pileup-stats.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 pileup-stats.3 -> pileup-stats.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2779880 Dec 23 19:56 pileup-stats.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 prefetch -> prefetch.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 466784 Dec 23 19:56 prefetch-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 prefetch.3 -> prefetch.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 prefetch.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 rcexplain -> rcexplain.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 rcexplain.3 -> rcexplain.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 67456 Dec 23 19:56 rcexplain.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 read-filter-redact -> read-filter-redact.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 24 Dec 23 19:58 read-filter-redact.3 -> read-filter-redact.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 111192 Dec 23 19:56 read-filter-redact.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 ref-variation -> ref-variation.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 ref-variation.3 -> ref-variation.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2921088 Dec 23 19:56 ref-variation.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 rowwritetest -> rowwritetest.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 rowwritetest.3 -> rowwritetest.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 88584 Dec 23 19:56 rowwritetest.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sam-dump -> sam-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 834504 Dec 23 19:56 sam-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sam-dump.3 -> sam-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sam-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 samview -> samview.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 samview-util -> samview-util.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 samview-util.3 -> samview-util.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 64128 Dec 23 19:56 samview-util.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 samview.3 -> samview.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 305680 Dec 23 19:56 samview.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 schema-replace -> schema-replace.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 schema-replace.3 -> schema-replace.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 82928 Dec 23 19:56 schema-replace.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sff-dump -> sff-dump.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sff-dump.3 -> sff-dump.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 234424 Dec 23 19:56 sff-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sff-load -> sff-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sff-load.3 -> sff-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 652080 Dec 23 19:56 sff-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sortreadtest -> sortreadtest.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 sortreadtest.3 -> sortreadtest.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 79784 Dec 23 19:56 sortreadtest.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-info -> sra-info.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-info.3 -> sra-info.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2263624 Dec 23 19:56 sra-info.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 sra-pileup -> sra-pileup.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 443728 Dec 23 19:56 sra-pileup-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 sra-pileup.3 -> sra-pileup.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-pileup.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 sra-search -> sra-search.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 sra-search.3 -> sra-search.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 3981768 Dec 23 19:56 sra-search.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-sort -> sra-sort.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 sra-sort-cg -> sra-sort-cg.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 sra-sort-cg.3 -> sra-sort-cg.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 808808 Dec 23 19:56 sra-sort-cg.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-sort.3 -> sra-sort.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 808840 Dec 23 19:56 sra-sort.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-stat -> sra-stat.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-stat.3 -> sra-stat.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 338192 Dec 23 19:56 sra-stat.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 srapath -> srapath.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 256120 Dec 23 19:56 srapath-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 srapath.3 -> srapath.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 srapath.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sratools -> sratools.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sratools.3 -> sratools.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 5131504 Dec 23 19:56 sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 srf-load -> srf-load.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 srf-load.3 -> srf-load.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 833144 Dec 23 19:56 srf-load.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 test-download -> test-download.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 test-download.3 -> test-download.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 93648 Dec 23 19:56 test-download.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 24 Dec 23 19:58 test-read-write-cursor -> test-read-write-cursor.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 28 Dec 23 19:58 test-read-write-cursor.3 -> test-read-write-cursor.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 75488 Dec 23 19:56 test-read-write-cursor.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 test-sra -> test-sra.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 test-sra.3 -> test-sra.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 343504 Dec 23 19:56 test-sra.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 8 Dec 23 19:58 testld -> testld.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 testld.3 -> testld.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 76472 Dec 23 19:56 testld.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 txt2kdb -> txt2kdb.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 txt2kdb.3 -> txt2kdb.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 83256 Dec 23 19:56 txt2kdb.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 var-expand -> var-expand.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 var-expand.3 -> var-expand.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 1994376 Dec 23 19:56 var-expand.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 vdb-config -> vdb-config.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 vdb-config.3 -> vdb-config.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 2899248 Dec 23 19:56 vdb-config.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-copy -> vdb-copy.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-copy.3 -> vdb-copy.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 329672 Dec 23 19:56 vdb-copy.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-decrypt -> vdb-decrypt.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 vdb-decrypt.3 -> vdb-decrypt.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 121584 Dec 23 19:56 vdb-decrypt.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-diff -> vdb-diff.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-diff.3 -> vdb-diff.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 155224 Dec 23 19:56 vdb-diff.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-dump -> vdb-dump.3 -rwxr-xr-x 1 pbuilder1 pbuilder1 897936 Dec 23 19:56 vdb-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-dump.3 -> vdb-dump.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-encrypt -> vdb-encrypt.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 vdb-encrypt.3 -> vdb-encrypt.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 119952 Dec 23 19:56 vdb-encrypt.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-lock -> vdb-lock.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-lock.3 -> vdb-lock.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 68336 Dec 23 19:56 vdb-lock.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 vdb-sql -> vdb-sql.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-sql.3 -> vdb-sql.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 5287424 Dec 23 19:57 vdb-sql.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 vdb-unlock -> vdb-unlock.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 vdb-unlock.3 -> vdb-unlock.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 68344 Dec 23 19:56 vdb-unlock.3.0.9 lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-validate -> vdb-validate.3 lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 vdb-validate.3 -> vdb-validate.3.0.9 -rwxr-xr-x 1 pbuilder1 pbuilder1 259912 Dec 23 19:56 vdb-validate.3.0.9 cd debian/tmp/usr/bin && \ for bin in *-orig.* ; do \ base=${bin%-orig.*} && \ vbase=$(readlink "$(readlink $base)") && \ vdriver=$(readlink "$vbase") && \ mv -v $bin $base-orig && \ ln -snfv ${vdriver%%.[0-9]*} $vbase || exit $? ; \ done && \ for bin in *[a-z+] ; do \ bin2=$(readlink $bin) ; \ bin3=$(readlink "$bin2") ; \ case $bin2 in \ $bin.* ) rm -v $bin2 && mv -v $bin3 $bin || exit $? ;; \ esac ; \ done renamed 'fasterq-dump-orig.3.0.9' -> 'fasterq-dump-orig' 'fasterq-dump.3.0.9' -> 'sratools' renamed 'fastq-dump-orig.3.0.9' -> 'fastq-dump-orig' 'fastq-dump.3.0.9' -> 'sratools' renamed 'prefetch-orig.3.0.9' -> 'prefetch-orig' 'prefetch.3.0.9' -> 'sratools' renamed 'sam-dump-orig.3.0.9' -> 'sam-dump-orig' 'sam-dump.3.0.9' -> 'sratools' renamed 'sra-pileup-orig.3.0.9' -> 'sra-pileup-orig' 'sra-pileup.3.0.9' -> 'sratools' renamed 'srapath-orig.3.0.9' -> 'srapath-orig' 'srapath.3.0.9' -> 'sratools' renamed 'vdb-dump-orig.3.0.9' -> 'vdb-dump-orig' 'vdb-dump.3.0.9' -> 'sratools' removed 'abi-dump.3' renamed 'abi-dump.3.0.9' -> 'abi-dump' removed 'abi-load.3' renamed 'abi-load.3.0.9' -> 'abi-load' removed 'align-cache.3' renamed 'align-cache.3.0.9' -> 'align-cache' removed 'align-info.3' renamed 'align-info.3.0.9' -> 'align-info' removed 'bam-load.3' renamed 'bam-load.3.0.9' -> 'bam-load' removed 'cache-mgr.3' renamed 'cache-mgr.3.0.9' -> 'cache-mgr' removed 'ccextract.3' renamed 'ccextract.3.0.9' -> 'ccextract' removed 'cg-load.3' renamed 'cg-load.3.0.9' -> 'cg-load' removed 'check-corrupt.3' renamed 'check-corrupt.3.0.9' -> 'check-corrupt' removed 'check-redact.3' renamed 'check-redact.3.0.9' -> 'check-redact' removed 'copycat.3' renamed 'copycat.3.0.9' -> 'copycat' removed 'crc32sum.3' renamed 'crc32sum.3.0.9' -> 'crc32sum' removed 'dump-blob-boundaries.3' renamed 'dump-blob-boundaries.3.0.9' -> 'dump-blob-boundaries' removed 'fastconv.3' renamed 'fastconv.3.0.9' -> 'fastconv' removed 'fasterq-dump.3' renamed 'fasterq-dump.3.0.9' -> 'fasterq-dump' removed 'fastq-dump.3' renamed 'fastq-dump.3.0.9' -> 'fastq-dump' removed 'fastq-load.3' renamed 'fastq-load.3.0.9' -> 'fastq-load' removed 'general-loader.3' renamed 'general-loader.3.0.9' -> 'general-loader' removed 'helicos-load.3' renamed 'helicos-load.3.0.9' -> 'helicos-load' removed 'illumina-dump.3' renamed 'illumina-dump.3.0.9' -> 'illumina-dump' removed 'illumina-load.3' renamed 'illumina-load.3.0.9' -> 'illumina-load' removed 'kar.3' renamed 'kar.3.0.9' -> 'kar' removed 'kar+.3' renamed 'kar+.3.0.9' -> 'kar+' removed 'kar+meta.3' renamed 'kar+meta.3.0.9' -> 'kar+meta' removed 'kdb-index.3' renamed 'kdb-index.3.0.9' -> 'kdb-index' removed 'kdbmeta.3' renamed 'kdbmeta.3.0.9' -> 'kdbmeta' removed 'latf-load.3' renamed 'latf-load.3.0.9' -> 'latf-load' removed 'make-read-filter.3' renamed 'make-read-filter.3.0.9' -> 'make-read-filter' removed 'md5cp.3' renamed 'md5cp.3.0.9' -> 'md5cp' removed 'meta-cmp.3' renamed 'meta-cmp.3.0.9' -> 'meta-cmp' removed 'meta-copy.3' renamed 'meta-copy.3.0.9' -> 'meta-copy' removed 'meta-repair.3' renamed 'meta-repair.3.0.9' -> 'meta-repair' removed 'ngs-pileup.3' renamed 'ngs-pileup.3.0.9' -> 'ngs-pileup' removed 'pacbio-correct.3' renamed 'pacbio-correct.3.0.9' -> 'pacbio-correct' removed 'pacbio-load.3' renamed 'pacbio-load.3.0.9' -> 'pacbio-load' removed 'pacbio-loadxml.3' renamed 'pacbio-loadxml.3.0.9' -> 'pacbio-loadxml' removed 'pileup-stats.3' renamed 'pileup-stats.3.0.9' -> 'pileup-stats' removed 'prefetch.3' renamed 'prefetch.3.0.9' -> 'prefetch' removed 'rcexplain.3' renamed 'rcexplain.3.0.9' -> 'rcexplain' removed 'read-filter-redact.3' renamed 'read-filter-redact.3.0.9' -> 'read-filter-redact' removed 'ref-variation.3' renamed 'ref-variation.3.0.9' -> 'ref-variation' removed 'rowwritetest.3' renamed 'rowwritetest.3.0.9' -> 'rowwritetest' removed 'sam-dump.3' renamed 'sam-dump.3.0.9' -> 'sam-dump' removed 'samview.3' renamed 'samview.3.0.9' -> 'samview' removed 'samview-util.3' renamed 'samview-util.3.0.9' -> 'samview-util' removed 'schema-replace.3' renamed 'schema-replace.3.0.9' -> 'schema-replace' removed 'sff-dump.3' renamed 'sff-dump.3.0.9' -> 'sff-dump' removed 'sff-load.3' renamed 'sff-load.3.0.9' -> 'sff-load' removed 'sortreadtest.3' renamed 'sortreadtest.3.0.9' -> 'sortreadtest' removed 'sra-info.3' renamed 'sra-info.3.0.9' -> 'sra-info' removed 'sra-pileup.3' renamed 'sra-pileup.3.0.9' -> 'sra-pileup' removed 'sra-search.3' renamed 'sra-search.3.0.9' -> 'sra-search' removed 'sra-sort.3' renamed 'sra-sort.3.0.9' -> 'sra-sort' removed 'sra-sort-cg.3' renamed 'sra-sort-cg.3.0.9' -> 'sra-sort-cg' removed 'sra-stat.3' renamed 'sra-stat.3.0.9' -> 'sra-stat' removed 'srapath.3' renamed 'srapath.3.0.9' -> 'srapath' removed 'sratools.3' renamed 'sratools.3.0.9' -> 'sratools' removed 'srf-load.3' renamed 'srf-load.3.0.9' -> 'srf-load' removed 'test-download.3' renamed 'test-download.3.0.9' -> 'test-download' removed 'test-read-write-cursor.3' renamed 'test-read-write-cursor.3.0.9' -> 'test-read-write-cursor' removed 'test-sra.3' renamed 'test-sra.3.0.9' -> 'test-sra' removed 'testld.3' renamed 'testld.3.0.9' -> 'testld' removed 'txt2kdb.3' renamed 'txt2kdb.3.0.9' -> 'txt2kdb' removed 'var-expand.3' renamed 'var-expand.3.0.9' -> 'var-expand' removed 'vdb-config.3' renamed 'vdb-config.3.0.9' -> 'vdb-config' removed 'vdb-copy.3' renamed 'vdb-copy.3.0.9' -> 'vdb-copy' removed 'vdb-decrypt.3' renamed 'vdb-decrypt.3.0.9' -> 'vdb-decrypt' removed 'vdb-diff.3' renamed 'vdb-diff.3.0.9' -> 'vdb-diff' removed 'vdb-dump.3' renamed 'vdb-dump.3.0.9' -> 'vdb-dump' removed 'vdb-encrypt.3' renamed 'vdb-encrypt.3.0.9' -> 'vdb-encrypt' removed 'vdb-lock.3' renamed 'vdb-lock.3.0.9' -> 'vdb-lock' removed 'vdb-sql.3' renamed 'vdb-sql.3.0.9' -> 'vdb-sql' removed 'vdb-unlock.3' renamed 'vdb-unlock.3.0.9' -> 'vdb-unlock' removed 'vdb-validate.3' renamed 'vdb-validate.3.0.9' -> 'vdb-validate' mkdir debian/tmp/usr/lib/sra-toolkit mv debian/tmp/usr/bin/sratools debian/tmp/usr/lib/sra-toolkit for x in debian/tmp/usr/bin/*-orig; do \ mv -v $x debian/tmp/usr/lib/sra-toolkit ; \ ln -snfv ../lib/sra-toolkit/sratools ${x%-orig} ; \ done renamed 'debian/tmp/usr/bin/fasterq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fasterq-dump-orig' 'debian/tmp/usr/bin/fasterq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/fastq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fastq-dump-orig' 'debian/tmp/usr/bin/fastq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/prefetch-orig' -> 'debian/tmp/usr/lib/sra-toolkit/prefetch-orig' 'debian/tmp/usr/bin/prefetch' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sam-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sam-dump-orig' 'debian/tmp/usr/bin/sam-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sra-pileup-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sra-pileup-orig' 'debian/tmp/usr/bin/sra-pileup' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/srapath-orig' -> 'debian/tmp/usr/lib/sra-toolkit/srapath-orig' 'debian/tmp/usr/bin/srapath' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/vdb-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/vdb-dump-orig' 'debian/tmp/usr/bin/vdb-dump' -> '../lib/sra-toolkit/sratools' dh_install # remove susipcious file which is not executable and conflicts with package magic rm -f debian/*/usr/bin/magic # Formally supply a standard installation ID to satisfy sratools echo '/LIBS/GUID = "806b5c3b-0088-4732-8359-51630950d723"' >debian/sra-toolkit/etc/ncbi/debian.kfg set -e && for i in 3.13 3.12; do \ cd ngs/ngs-python; \ python$i ./setup.py install --install-layout=deb \ --root /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/python3-ngs; \ cd ../..; \ done /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' find debian -name "*.pyc" -delete find debian -type d -name __pycache__ | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_installexamples find debian/*/ -name .gitignore -delete make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_python3 -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake debian/rules execute_before_dh_link make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' # Putting the upstream version number (without the dfsg part) at the end of # symlink source in the -jni package. sed -e 's/\(#STRIPPED_UPSTREAM_VERSION#\)/\13.0.9+dfsg/' \ -e 's/#STRIPPED_UPSTREAM_VERSION#\(.*\)+dfsg[0-9]*/\1/' \ -e 's/\$[({]DEB_HOST_MULTIARCH[)}]/x86_64-linux-gnu/g' \ debian/libngs-jni.links.in > debian/libngs-jni.links make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake jh_manifest -O--buildsystem=cmake Duplicate specification "V:s" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake mh_installpoms -O--buildsystem=cmake mh_linkjars --skip-clean-poms -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: symbol VDatabaseRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KNamelistCount used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VDatabaseOpenTableRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VSchemaRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcCursorCreateFailed used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcSecondaryAlignmentMissingPrimary used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcTypeIncorrect used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KClientHttpResultRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KClientHttpRequestRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VCursorGetBlob used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: 133 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dpkg-gencontrol: warning: Depends field of package libngs-jni: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package libncbi-ngs-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3' in '../libngs-c++3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'sra-toolkit' in '../sra-toolkit_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3-dbgsym' in '../libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3' in '../libncbi-ngs3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++-dev' in '../libngs-c++-dev_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3-dbgsym' in '../libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs-dev' in '../libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java' in '../libngs-java_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-jni' in '../libngs-jni_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java-doc' in '../libngs-java-doc_3.0.9+dfsg-7_all.deb'. dpkg-deb: building package 'python3-ngs' in '../python3-ngs_3.0.9+dfsg-7_all.deb'. dpkg-genbuildinfo --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.buildinfo dpkg-genchanges --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/2302652 and its subdirectories I: Current time: Tue Dec 23 19:59:25 -12 2025 I: pbuilder-time-stamp: 1766563165 Thu Nov 21 01:36:26 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Thu Nov 21 01:36:26 UTC 2024 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Thu Nov 21 01:36:26 UTC 2024 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Thu Nov 21 01:36:26 UTC 2024 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-QjHwMS' ==================================================================================== Thu Nov 21 01:36:28 UTC 2024 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "2 sra-sdk unstable /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0 3.0.9+dfsg-7" as arguments. Thu Nov 21 01:36:28 UTC 2024 - actually running "reproducible_build.sh" (md5sum 68e686e434c9ab7bc3ec047d8b309cbc) as "/tmp/jenkins-script-aq7Vl2qZ" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Nov 21 01:36:28 UTC 2024 I: Downloading source for unstable/sra-sdk=3.0.9+dfsg-7 Reading package lists... NOTICE: 'sra-sdk' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sra-sdk.git Please use: git clone https://salsa.debian.org/med-team/sra-sdk.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 38.4 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (dsc) [2947 B] Get:2 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (tar) [34.6 MB] Get:3 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (diff) [3792 kB] Fetched 38.4 MB in 1s (48.6 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'sra-sdk' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/sra-sdk.git Please use: git clone https://salsa.debian.org/med-team/sra-sdk.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 38.4 MB of source archives. Get:1 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (dsc) [2947 B] Get:2 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (tar) [34.6 MB] Get:3 http://deb.debian.org/debian unstable/main sra-sdk 3.0.9+dfsg-7 (diff) [3792 kB] Fetched 38.4 MB in 1s (48.6 MB/s) Download complete and in download only mode ============================================================================= Re-Building sra-sdk in unstable on amd64 on ionos1-amd64 now. Date: Thu Nov 21 01:36:29 UTC 2024 Date UTC: Thu Nov 21 01:36:29 UTC 2024 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0 + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_6cNb + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' sra-sdk = debian-installer -o sra-sdk = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' sra-sdk = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_6cNb --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2 --logfile b2/build.log sra-sdk_3.0.9+dfsg-7.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Thu Nov 21 15:36:30 +14 2024 I: pbuilder-time-stamp: 1732152990 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [sra-sdk_3.0.9+dfsg-7.dsc] I: copying [./sra-sdk_3.0.9+dfsg.orig.tar.xz] I: copying [./sra-sdk_3.0.9+dfsg-7.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Oct 18 03:18:02 2024 gpgv: using RSA key 7C3AB9CFD230BD30DD009C591E7091B1F14A64A2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./sra-sdk_3.0.9+dfsg-7.dsc: no acceptable signature found dpkg-source: info: extracting sra-sdk in sra-sdk-3.0.9+dfsg dpkg-source: info: unpacking sra-sdk_3.0.9+dfsg.orig.tar.xz dpkg-source: info: unpacking sra-sdk_3.0.9+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying set_explicit_path_to_schemata.patch dpkg-source: info: applying python3 dpkg-source: info: applying skip_test_using_lots_of_memory.patch dpkg-source: info: applying find_ncbi-vdb-interfaces.patch dpkg-source: info: applying link_vdb_dynamically.patch dpkg-source: info: applying use_debian_packaged_re2.patch dpkg-source: info: applying use_debian_packaged_compression_libs.patch dpkg-source: info: applying use_soversions.patch dpkg-source: info: applying label_online_tests.patch dpkg-source: info: applying prefer_dynamic_libraries.patch dpkg-source: info: applying fix_ngs-c++-underlinkage.patch dpkg-source: info: applying use_c_locale_for_comma.patch dpkg-source: info: applying no_sse4.2.patch dpkg-source: info: applying fix_arm64_build.patch dpkg-source: info: applying support_libre2-11.patch dpkg-source: info: applying missing_include.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D01_modify_environment starting debug: Running on ionos1-amd64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Nov 21 01:36 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=amd64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=fb94f5a74ad347ea9a7104f228f10f36 LANG=C LANGUAGE=et_EE:et LC_ALL=C MACHTYPE=x86_64-pc-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=3843499 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_6cNb --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2 --logfile b2/build.log sra-sdk_3.0.9+dfsg-7.dsc' SUDO_GID=110 SUDO_UID=105 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://46.16.76.132:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, d-shlibs, dh-python, javahelper, libabsl-dev, libncbi-vdb-dev (>= 3.0.9+dfsg~), libfuse-dev, libhdf5-dev, libmagic-dev, libre2-dev, libxml2-dev, libzstd-dev, liblzma-dev, libsam-extract-dev, maven-repo-helper, python3-all, default-jdk, flex, bison dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on dh-python; however: Package dh-python is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libabsl-dev; however: Package libabsl-dev is not installed. pbuilder-satisfydepends-dummy depends on libncbi-vdb-dev (>= 3.0.9+dfsg~); however: Package libncbi-vdb-dev is not installed. pbuilder-satisfydepends-dummy depends on libfuse-dev; however: Package libfuse-dev is not installed. pbuilder-satisfydepends-dummy depends on libhdf5-dev; however: Package libhdf5-dev is not installed. pbuilder-satisfydepends-dummy depends on libmagic-dev; however: Package libmagic-dev is not installed. pbuilder-satisfydepends-dummy depends on libre2-dev; however: Package libre2-dev is not installed. pbuilder-satisfydepends-dummy depends on libxml2-dev; however: Package libxml2-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev; however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on libsam-extract-dev; however: Package libsam-extract-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-repo-helper; however: Package maven-repo-helper is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on flex; however: Package flex is not installed. pbuilder-satisfydepends-dummy depends on bison; however: Package bison is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bison{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} cmake{a} cmake-data{a} comerr-dev{a} d-shlibs{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} fastjar{a} file{a} flex{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} groff-base{a} gtk-update-icon-cache{a} hdf5-helpers{a} hicolor-icon-theme{a} icu-devtools{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} krb5-multidev{a} libabsl-dev{a} libabsl20230802{a} libaec-dev{a} libaec0{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-radeon1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} libevent-2.1-7t64{a} libexpat1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libfuse-dev{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libharfbuzz0b{a} libhdf5-103-1t64{a} libhdf5-cpp-103-1t64{a} libhdf5-dev{a} libhdf5-fortran-102t64{a} libhdf5-hl-100t64{a} libhdf5-hl-cpp-100t64{a} libhdf5-hl-fortran-100t64{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libicu-dev{a} libicu72{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-2.5-0{a} libldap-dev{a} liblerc4{a} libllvm19{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-dev{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmoo-perl{a} libncbi-vdb-dev{a} libncbi-vdb3{a} libncbi-wvdb-dev{a} libncbi-wvdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnpth0t64{a} libnsl2{a} libnspr4{a} libnss3{a} libp11-kit-dev{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcsclite1{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libre2-11{a} libre2-dev{a} libreadline8t64{a} librhash1{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsam-extract-dev{a} libsam-extract3{a} libsasl2-2{a} libsasl2-modules-db{a} libselinux1-dev{a} libsensors-config{a} libsensors5{a} libsepol-dev{a} libsharpyuv0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsystemd-shared{a} libsz2{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} liburi-perl{a} libuv1t64{a} libvulkan1{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml2{a} libxml2-dev{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libz3-4{a} libzstd-dev{a} m4{a} man-db{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} shared-mime-info{a} systemd{a} systemd-sysv{a} tzdata{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core bzip2-doc chrony curl debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra gnupg-utils gpg-wks-client krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libfl-dev libgdk-pixbuf2.0-bin libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgmock-dev libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev licensecheck lintian linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd unzip wget xdg-user-dirs 0 packages upgraded, 353 newly installed, 0 to remove and 0 not upgraded. Need to get 306 MB of archives. After unpacking 1030 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 libapparmor1 amd64 3.1.7-1+b3 [42.1 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libsystemd-shared amd64 257~rc2-3 [2133 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 systemd amd64 257~rc2-3 [3603 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 systemd-sysv amd64 257~rc2-3 [59.3 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 libdbus-1-3 amd64 1.14.10-6 [203 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 dbus-bin amd64 1.14.10-6 [106 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 dbus-session-bus-common all 1.14.10-6 [79.2 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 dbus-daemon amd64 1.14.10-6 [185 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 dbus-system-bus-common all 1.14.10-6 [80.2 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 dbus amd64 1.14.10-6 [98.5 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 flex amd64 2.6.4-8.2+b3 [423 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 python3-minimal amd64 3.12.7-1 [26.8 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 media-types all 10.1.0 [26.9 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 netbase all 6.4 [12.8 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 tzdata all 2024b-3 [255 kB] Get: 22 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 26 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 32 http://deb.debian.org/debian unstable/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 33 http://deb.debian.org/debian unstable/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 34 http://deb.debian.org/debian unstable/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 libpython3-stdlib amd64 3.12.7-1 [9712 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 python3 amd64 3.12.7-1 [27.8 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 libpython3.13-minimal amd64 3.13.0-2 [856 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 python3.13-minimal amd64 3.13.0-2 [2038 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 ca-certificates all 20240203 [158 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 libpam-systemd amd64 257~rc2-3 [291 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.2-11 [91.5 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 libglib2.0-0t64 amd64 2.82.2-3 [1501 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 shared-mime-info amd64 2.4-5+b1 [759 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 59 http://deb.debian.org/debian unstable/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1+b1 [141 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 gtk-update-icon-cache amd64 4.16.5+ds-2 [50.3 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 adwaita-icon-theme all 47.0-2 [463 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 at-spi2-common all 2.54.0-1 [170 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.72-3 [493 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 74 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 75 http://deb.debian.org/debian unstable/main amd64 bison amd64 2:3.8.2+dfsg-1+b2 [1170 kB] Get: 76 http://deb.debian.org/debian unstable/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 77 http://deb.debian.org/debian unstable/main amd64 cmake-data all 3.31.0-1 [2265 kB] Get: 78 http://deb.debian.org/debian unstable/main amd64 libarchive13t64 amd64 3.7.4-1.1 [349 kB] Get: 79 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 80 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 81 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 82 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 83 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 84 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 85 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 86 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 87 http://deb.debian.org/debian unstable/main amd64 libcurl4t64 amd64 8.11.0-1 [351 kB] Get: 88 http://deb.debian.org/debian unstable/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 89 http://deb.debian.org/debian unstable/main amd64 librhash1 amd64 1.4.5-1 [132 kB] Get: 90 http://deb.debian.org/debian unstable/main amd64 libuv1t64 amd64 1.48.0-7 [148 kB] Get: 91 http://deb.debian.org/debian unstable/main amd64 cmake amd64 3.31.0-1 [11.9 MB] Get: 92 http://deb.debian.org/debian unstable/main amd64 comerr-dev amd64 2.1-1.47.1-1+b1 [54.8 kB] Get: 93 http://deb.debian.org/debian unstable/main amd64 d-shlibs all 0.107 [11.0 kB] Get: 94 http://deb.debian.org/debian unstable/main amd64 dbus-user-session amd64 1.14.10-6 [79.0 kB] Get: 95 http://deb.debian.org/debian unstable/main amd64 libdconf1 amd64 0.40.0-4+b3 [41.9 kB] Get: 96 http://deb.debian.org/debian unstable/main amd64 dconf-service amd64 0.40.0-4+b3 [32.6 kB] Get: 97 http://deb.debian.org/debian unstable/main amd64 dconf-gsettings-backend amd64 0.40.0-4+b3 [28.8 kB] Get: 98 http://deb.debian.org/debian unstable/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 99 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 100 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-8 [517 kB] Get: 101 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 102 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 103 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 104 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 105 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 106 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 107 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 108 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 109 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 110 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.20 [915 kB] Get: 111 http://deb.debian.org/debian unstable/main amd64 java-common all 0.76 [6776 B] Get: 112 http://deb.debian.org/debian unstable/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 113 http://deb.debian.org/debian unstable/main amd64 libnspr4 amd64 2:4.36-1 [110 kB] Get: 114 http://deb.debian.org/debian unstable/main amd64 libnss3 amd64 2:3.106-1 [1392 kB] Get: 115 http://deb.debian.org/debian unstable/main amd64 libpcsclite1 amd64 2.3.0-3 [55.8 kB] Get: 116 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre-headless amd64 21.0.5+11-1 [41.8 MB] Get: 117 http://deb.debian.org/debian unstable/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 118 http://deb.debian.org/debian unstable/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [51.2 kB] Get: 119 http://deb.debian.org/debian unstable/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 120 http://deb.debian.org/debian unstable/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 121 http://deb.debian.org/debian unstable/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 122 http://deb.debian.org/debian unstable/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 123 http://deb.debian.org/debian unstable/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 124 http://deb.debian.org/debian unstable/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 125 http://deb.debian.org/debian unstable/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 126 http://deb.debian.org/debian unstable/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [76.4 kB] Get: 127 http://deb.debian.org/debian unstable/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [67.6 kB] Get: 128 http://deb.debian.org/debian unstable/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 129 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 130 http://deb.debian.org/debian unstable/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 131 http://deb.debian.org/debian unstable/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get: 132 http://deb.debian.org/debian unstable/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get: 133 http://deb.debian.org/debian unstable/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB] Get: 134 http://deb.debian.org/debian unstable/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 135 http://deb.debian.org/debian unstable/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 136 http://deb.debian.org/debian unstable/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get: 137 http://deb.debian.org/debian unstable/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 138 http://deb.debian.org/debian unstable/main amd64 libcairo-gobject2 amd64 1.18.2-2 [130 kB] Get: 139 http://deb.debian.org/debian unstable/main amd64 libcloudproviders0 amd64 0.3.6-1+b1 [29.2 kB] Get: 140 http://deb.debian.org/debian unstable/main amd64 libcolord2 amd64 1.4.7-1+b2 [140 kB] Get: 141 http://deb.debian.org/debian unstable/main amd64 libavahi-common-data amd64 0.8-13+b3 [112 kB] Get: 142 http://deb.debian.org/debian unstable/main amd64 libavahi-common3 amd64 0.8-13+b3 [43.2 kB] Get: 143 http://deb.debian.org/debian unstable/main amd64 libavahi-client3 amd64 0.8-13+b3 [47.5 kB] Get: 144 http://deb.debian.org/debian unstable/main amd64 libcups2t64 amd64 2.4.10-2 [251 kB] Get: 145 http://deb.debian.org/debian unstable/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 146 http://deb.debian.org/debian unstable/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 147 http://deb.debian.org/debian unstable/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 148 http://deb.debian.org/debian unstable/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 149 http://deb.debian.org/debian unstable/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get: 150 http://deb.debian.org/debian unstable/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 151 http://deb.debian.org/debian unstable/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 152 http://deb.debian.org/debian unstable/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 153 http://deb.debian.org/debian unstable/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [223 kB] Get: 154 http://deb.debian.org/debian unstable/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [54.2 kB] Get: 155 http://deb.debian.org/debian unstable/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [35.2 kB] Get: 156 http://deb.debian.org/debian unstable/main amd64 libwayland-client0 amd64 1.23.0-1+b1 [26.6 kB] Get: 157 http://deb.debian.org/debian unstable/main amd64 libwayland-cursor0 amd64 1.23.0-1+b1 [11.7 kB] Get: 158 http://deb.debian.org/debian unstable/main amd64 libwayland-egl1 amd64 1.23.0-1+b1 [5664 B] Get: 159 http://deb.debian.org/debian unstable/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 160 http://deb.debian.org/debian unstable/main amd64 libxfixes3 amd64 1:6.0.0-2+b2 [20.3 kB] Get: 161 http://deb.debian.org/debian unstable/main amd64 libxcursor1 amd64 1:1.2.2-1+b1 [37.6 kB] Get: 162 http://deb.debian.org/debian unstable/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 163 http://deb.debian.org/debian unstable/main amd64 libxinerama1 amd64 2:1.1.4-3+b2 [16.0 kB] Get: 164 http://deb.debian.org/debian unstable/main amd64 xkb-data all 2.42-1 [790 kB] Get: 165 http://deb.debian.org/debian unstable/main amd64 libxkbcommon0 amd64 1.7.0-1 [113 kB] Get: 166 http://deb.debian.org/debian unstable/main amd64 libxrandr2 amd64 2:1.5.4-1+b1 [36.3 kB] Get: 167 http://deb.debian.org/debian unstable/main amd64 libgtk-3-common all 3.24.43-4 [4657 kB] Get: 168 http://deb.debian.org/debian unstable/main amd64 libgtk-3-0t64 amd64 3.24.43-4 [2754 kB] Get: 169 http://deb.debian.org/debian unstable/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 170 http://deb.debian.org/debian unstable/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get: 171 http://deb.debian.org/debian unstable/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get: 172 http://deb.debian.org/debian unstable/main amd64 libglapi-mesa amd64 24.2.7-1 [37.9 kB] Get: 173 http://deb.debian.org/debian unstable/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [241 kB] Get: 174 http://deb.debian.org/debian unstable/main amd64 libxcb-dri2-0 amd64 1.17.0-2+b1 [107 kB] Get: 175 http://deb.debian.org/debian unstable/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 176 http://deb.debian.org/debian unstable/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 177 http://deb.debian.org/debian unstable/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 178 http://deb.debian.org/debian unstable/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 179 http://deb.debian.org/debian unstable/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 180 http://deb.debian.org/debian unstable/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 181 http://deb.debian.org/debian unstable/main amd64 libxshmfence1 amd64 1.3-1+b2 [8848 B] Get: 182 http://deb.debian.org/debian unstable/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b3 [19.3 kB] Get: 183 http://deb.debian.org/debian unstable/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get: 184 http://deb.debian.org/debian unstable/main amd64 libpciaccess0 amd64 0.17-3+b2 [51.9 kB] Get: 185 http://deb.debian.org/debian unstable/main amd64 libdrm-intel1 amd64 2.4.123-1 [63.7 kB] Get: 186 http://deb.debian.org/debian unstable/main amd64 libdrm-radeon1 amd64 2.4.123-1 [22.3 kB] Get: 187 http://deb.debian.org/debian unstable/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get: 188 http://deb.debian.org/debian unstable/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 189 http://deb.debian.org/debian unstable/main amd64 libllvm19 amd64 1:19.1.3-2 [26.0 MB] Get: 190 http://deb.debian.org/debian unstable/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 191 http://deb.debian.org/debian unstable/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB] Get: 192 http://deb.debian.org/debian unstable/main amd64 mesa-libgallium amd64 24.2.7-1 [9186 kB] Get: 193 http://deb.debian.org/debian unstable/main amd64 libvulkan1 amd64 1.3.296.0-1 [126 kB] Get: 194 http://deb.debian.org/debian unstable/main amd64 libwayland-server0 amd64 1.23.0-1+b1 [34.2 kB] Get: 195 http://deb.debian.org/debian unstable/main amd64 libgbm1 amd64 24.2.7-1 [42.8 kB] Get: 196 http://deb.debian.org/debian unstable/main amd64 libgl1-mesa-dri amd64 24.2.7-1 [43.9 kB] Get: 197 http://deb.debian.org/debian unstable/main amd64 libglx-mesa0 amd64 24.2.7-1 [154 kB] Get: 198 http://deb.debian.org/debian unstable/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 199 http://deb.debian.org/debian unstable/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 200 http://deb.debian.org/debian unstable/main amd64 libasound2-data all 1.2.12-1 [21.0 kB] Get: 201 http://deb.debian.org/debian unstable/main amd64 libasound2t64 amd64 1.2.12-1+b1 [371 kB] Get: 202 http://deb.debian.org/debian unstable/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 203 http://deb.debian.org/debian unstable/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 204 http://deb.debian.org/debian unstable/main amd64 libxtst6 amd64 2:1.2.3-1.1+b2 [25.9 kB] Get: 205 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jre amd64 21.0.5+11-1 [205 kB] Get: 206 http://deb.debian.org/debian unstable/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 207 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jdk-headless amd64 21.0.5+11-1 [82.8 MB] Get: 208 http://deb.debian.org/debian unstable/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 209 http://deb.debian.org/debian unstable/main amd64 openjdk-21-jdk amd64 21.0.5+11-1 [3360 kB] Get: 210 http://deb.debian.org/debian unstable/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 211 http://deb.debian.org/debian unstable/main amd64 libassuan9 amd64 3.0.1-2 [60.6 kB] Get: 212 http://deb.debian.org/debian unstable/main amd64 gpgconf amd64 2.2.45-2 [120 kB] Get: 213 http://deb.debian.org/debian unstable/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 214 http://deb.debian.org/debian unstable/main amd64 libnpth0t64 amd64 1.6-3.1+b1 [18.2 kB] Get: 215 http://deb.debian.org/debian unstable/main amd64 dirmngr amd64 2.2.45-2 [368 kB] Get: 216 http://deb.debian.org/debian unstable/main amd64 gnupg-l10n all 2.2.45-2 [705 kB] Get: 217 http://deb.debian.org/debian unstable/main amd64 gpg amd64 2.2.45-2 [531 kB] Get: 218 http://deb.debian.org/debian unstable/main amd64 pinentry-curses amd64 1.2.1-4+b1 [79.7 kB] Get: 219 http://deb.debian.org/debian unstable/main amd64 gpg-agent amd64 2.2.45-2 [251 kB] Get: 220 http://deb.debian.org/debian unstable/main amd64 gpgsm amd64 2.2.45-2 [255 kB] Get: 221 http://deb.debian.org/debian unstable/main amd64 gnupg all 2.2.45-2 [376 kB] Get: 222 http://deb.debian.org/debian unstable/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 223 http://deb.debian.org/debian unstable/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 224 http://deb.debian.org/debian unstable/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 225 http://deb.debian.org/debian unstable/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 226 http://deb.debian.org/debian unstable/main amd64 libio-pty-perl amd64 1:1.20-1+b2 [34.3 kB] Get: 227 http://deb.debian.org/debian unstable/main amd64 libipc-run-perl all 20231003.0-2 [101 kB] Get: 228 http://deb.debian.org/debian unstable/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 229 http://deb.debian.org/debian unstable/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b4 [36.1 kB] Get: 230 http://deb.debian.org/debian unstable/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 231 http://deb.debian.org/debian unstable/main amd64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 232 http://deb.debian.org/debian unstable/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get: 233 http://deb.debian.org/debian unstable/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 234 http://deb.debian.org/debian unstable/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 235 http://deb.debian.org/debian unstable/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 236 http://deb.debian.org/debian unstable/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 237 http://deb.debian.org/debian unstable/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 238 http://deb.debian.org/debian unstable/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 239 http://deb.debian.org/debian unstable/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 240 http://deb.debian.org/debian unstable/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 241 http://deb.debian.org/debian unstable/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 242 http://deb.debian.org/debian unstable/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 243 http://deb.debian.org/debian unstable/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 244 http://deb.debian.org/debian unstable/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 245 http://deb.debian.org/debian unstable/main amd64 libhtml-parser-perl amd64 3.83-1+b1 [99.7 kB] Get: 246 http://deb.debian.org/debian unstable/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 247 http://deb.debian.org/debian unstable/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 248 http://deb.debian.org/debian unstable/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 249 http://deb.debian.org/debian unstable/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 250 http://deb.debian.org/debian unstable/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 251 http://deb.debian.org/debian unstable/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 252 http://deb.debian.org/debian unstable/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 253 http://deb.debian.org/debian unstable/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 254 http://deb.debian.org/debian unstable/main amd64 libnet-ssleay-perl amd64 1.94-2 [339 kB] Get: 255 http://deb.debian.org/debian unstable/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get: 256 http://deb.debian.org/debian unstable/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get: 257 http://deb.debian.org/debian unstable/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 258 http://deb.debian.org/debian unstable/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 259 http://deb.debian.org/debian unstable/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 260 http://deb.debian.org/debian unstable/main amd64 libwww-perl all 6.77-1 [183 kB] Get: 261 http://deb.debian.org/debian unstable/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 262 http://deb.debian.org/debian unstable/main amd64 wdiff amd64 1.2.2-6 [119 kB] Get: 263 http://deb.debian.org/debian unstable/main amd64 devscripts all 2.24.3 [1079 kB] Get: 264 http://deb.debian.org/debian unstable/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 265 http://deb.debian.org/debian unstable/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 266 http://deb.debian.org/debian unstable/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 267 http://deb.debian.org/debian unstable/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 268 http://deb.debian.org/debian unstable/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 269 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 270 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 271 http://deb.debian.org/debian unstable/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 272 http://deb.debian.org/debian unstable/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB] Get: 273 http://deb.debian.org/debian unstable/main amd64 python3-zipp all 3.21.0-1 [10.6 kB] Get: 274 http://deb.debian.org/debian unstable/main amd64 python3-setuptools all 75.2.0-1 [731 kB] Get: 275 http://deb.debian.org/debian unstable/main amd64 dh-python all 6.20241024 [109 kB] Get: 276 http://deb.debian.org/debian unstable/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 277 http://deb.debian.org/debian unstable/main amd64 hdf5-helpers amd64 1.10.10+repack-4 [23.5 kB] Get: 278 http://deb.debian.org/debian unstable/main amd64 icu-devtools amd64 72.1-5+b1 [210 kB] Get: 279 http://deb.debian.org/debian unstable/main amd64 jarwrapper all 0.80 [9692 B] Get: 280 http://deb.debian.org/debian unstable/main amd64 javahelper all 0.80 [80.4 kB] Get: 281 http://deb.debian.org/debian unstable/main amd64 libgssrpc4t64 amd64 1.21.3-3 [59.5 kB] Get: 282 http://deb.debian.org/debian unstable/main amd64 libkadm5clnt-mit12 amd64 1.21.3-3 [41.7 kB] Get: 283 http://deb.debian.org/debian unstable/main amd64 libkdb5-10t64 amd64 1.21.3-3 [42.0 kB] Get: 284 http://deb.debian.org/debian unstable/main amd64 libkadm5srv-mit12 amd64 1.21.3-3 [53.5 kB] Get: 285 http://deb.debian.org/debian unstable/main amd64 krb5-multidev amd64 1.21.3-3 [126 kB] Get: 286 http://deb.debian.org/debian unstable/main amd64 libabsl20230802 amd64 20230802.1-4 [464 kB] Get: 287 http://deb.debian.org/debian unstable/main amd64 libabsl-dev amd64 20230802.1-4 [1208 kB] Get: 288 http://deb.debian.org/debian unstable/main amd64 libaec0 amd64 1.1.3-1+b1 [23.8 kB] Get: 289 http://deb.debian.org/debian unstable/main amd64 libsz2 amd64 1.1.3-1+b1 [8080 B] Get: 290 http://deb.debian.org/debian unstable/main amd64 libaec-dev amd64 1.1.3-1+b1 [21.5 kB] Get: 291 http://deb.debian.org/debian unstable/main amd64 libbrotli-dev amd64 1.1.0-2+b6 [316 kB] Get: 292 http://deb.debian.org/debian unstable/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 293 http://deb.debian.org/debian unstable/main amd64 libidn2-dev amd64 2.3.7-2+b1 [123 kB] Get: 294 http://deb.debian.org/debian unstable/main amd64 libkrb5-dev amd64 1.21.3-3 [15.7 kB] Get: 295 http://deb.debian.org/debian unstable/main amd64 libldap-dev amd64 2.5.18+dfsg-3+b1 [303 kB] Get: 296 http://deb.debian.org/debian unstable/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 297 http://deb.debian.org/debian unstable/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 298 http://deb.debian.org/debian unstable/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 299 http://deb.debian.org/debian unstable/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB] Get: 300 http://deb.debian.org/debian unstable/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 301 http://deb.debian.org/debian unstable/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-2+b2 [329 kB] Get: 302 http://deb.debian.org/debian unstable/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-2+b2 [642 kB] Get: 303 http://deb.debian.org/debian unstable/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 304 http://deb.debian.org/debian unstable/main amd64 libunbound8 amd64 1.22.0-1 [598 kB] Get: 305 http://deb.debian.org/debian unstable/main amd64 libgnutls-dane0t64 amd64 3.8.8-2 [449 kB] Get: 306 http://deb.debian.org/debian unstable/main amd64 libgnutls-openssl27t64 amd64 3.8.8-2 [449 kB] Get: 307 http://deb.debian.org/debian unstable/main amd64 libp11-kit-dev amd64 0.25.5-2+b1 [208 kB] Get: 308 http://deb.debian.org/debian unstable/main amd64 libtasn1-6-dev amd64 4.19.0-3+b3 [98.9 kB] Get: 309 http://deb.debian.org/debian unstable/main amd64 nettle-dev amd64 3.10-1+b1 [1317 kB] Get: 310 http://deb.debian.org/debian unstable/main amd64 libgnutls28-dev amd64 3.8.8-2 [1391 kB] Get: 311 http://deb.debian.org/debian unstable/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 312 http://deb.debian.org/debian unstable/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB] Get: 313 http://deb.debian.org/debian unstable/main amd64 libssl-dev amd64 3.3.2-2 [2742 kB] Get: 314 http://deb.debian.org/debian unstable/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 315 http://deb.debian.org/debian unstable/main amd64 libzstd-dev amd64 1.5.6+dfsg-1+b1 [365 kB] Get: 316 http://deb.debian.org/debian unstable/main amd64 libcurl4-openssl-dev amd64 8.11.0-1 [461 kB] Get: 317 http://deb.debian.org/debian unstable/main amd64 libsepol-dev amd64 3.7-1 [370 kB] Get: 318 http://deb.debian.org/debian unstable/main amd64 libpcre2-16-0 amd64 10.44-4 [261 kB] Get: 319 http://deb.debian.org/debian unstable/main amd64 libpcre2-32-0 amd64 10.44-4 [248 kB] Get: 320 http://deb.debian.org/debian unstable/main amd64 libpcre2-posix3 amd64 10.44-4 [60.3 kB] Get: 321 http://deb.debian.org/debian unstable/main amd64 libpcre2-dev amd64 10.44-4 [790 kB] Get: 322 http://deb.debian.org/debian unstable/main amd64 libselinux1-dev amd64 3.7-3+b1 [160 kB] Get: 323 http://deb.debian.org/debian unstable/main amd64 libfuse-dev amd64 2.9.9-9 [1022 kB] Get: 324 http://deb.debian.org/debian unstable/main amd64 libgfortran5 amd64 14.2.0-8 [836 kB] Get: 325 http://deb.debian.org/debian unstable/main amd64 libhdf5-103-1t64 amd64 1.10.10+repack-4 [1253 kB] Get: 326 http://deb.debian.org/debian unstable/main amd64 libhdf5-cpp-103-1t64 amd64 1.10.10+repack-4 [130 kB] Get: 327 http://deb.debian.org/debian unstable/main amd64 libhdf5-fortran-102t64 amd64 1.10.10+repack-4 [89.5 kB] Get: 328 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-100t64 amd64 1.10.10+repack-4 [63.9 kB] Get: 329 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-fortran-100t64 amd64 1.10.10+repack-4 [40.5 kB] Get: 330 http://deb.debian.org/debian unstable/main amd64 libhdf5-hl-cpp-100t64 amd64 1.10.10+repack-4 [21.4 kB] Get: 331 http://deb.debian.org/debian unstable/main amd64 libjpeg62-turbo-dev amd64 1:2.1.5-3+b1 [292 kB] Get: 332 http://deb.debian.org/debian unstable/main amd64 libjpeg-dev amd64 1:2.1.5-3+b1 [72.2 kB] Get: 333 http://deb.debian.org/debian unstable/main amd64 libhdf5-dev amd64 1.10.10+repack-4 [2652 kB] Get: 334 http://deb.debian.org/debian unstable/main amd64 libicu-dev amd64 72.1-5+b1 [10.4 MB] Get: 335 http://deb.debian.org/debian unstable/main amd64 liblzma-dev amd64 5.6.3-1+b1 [316 kB] Get: 336 http://deb.debian.org/debian unstable/main amd64 libmagic-dev amd64 1:5.45-3+b1 [121 kB] Get: 337 http://deb.debian.org/debian unstable/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB] Get: 338 http://deb.debian.org/debian unstable/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB] Get: 339 http://deb.debian.org/debian unstable/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB] Get: 340 http://deb.debian.org/debian unstable/main amd64 ncbi-vdb-data all 3.0.9+dfsg-2 [74.0 kB] Get: 341 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb3 amd64 3.0.9+dfsg-2 [1189 kB] Get: 342 http://deb.debian.org/debian unstable/main amd64 libncbi-wvdb3 amd64 3.0.9+dfsg-2 [1191 kB] Get: 343 http://deb.debian.org/debian unstable/main amd64 libncbi-wvdb-dev amd64 3.0.9+dfsg-2 [1311 kB] Get: 344 http://deb.debian.org/debian unstable/main amd64 libncbi-vdb-dev amd64 3.0.9+dfsg-2 [1612 kB] Get: 345 http://deb.debian.org/debian unstable/main amd64 libpython3.13-stdlib amd64 3.13.0-2 [1992 kB] Get: 346 http://deb.debian.org/debian unstable/main amd64 libre2-11 amd64 20240501-3+b1 [196 kB] Get: 347 http://deb.debian.org/debian unstable/main amd64 libre2-dev amd64 20240501-3+b1 [255 kB] Get: 348 http://deb.debian.org/debian unstable/main amd64 libsam-extract3 amd64 3.0.9+dfsg-2 [43.6 kB] Get: 349 http://deb.debian.org/debian unstable/main amd64 libsam-extract-dev amd64 3.0.9+dfsg-2 [45.2 kB] Get: 350 http://deb.debian.org/debian unstable/main amd64 libxml2-dev amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [795 kB] Get: 351 http://deb.debian.org/debian unstable/main amd64 maven-repo-helper all 1.11 [142 kB] Get: 352 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 353 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] Fetched 306 MB in 10s (30.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19966 files and directories currently installed.) Preparing to unpack .../libapparmor1_3.1.7-1+b3_amd64.deb ... Unpacking libapparmor1:amd64 (3.1.7-1+b3) ... Selecting previously unselected package libsystemd-shared:amd64. Preparing to unpack .../libsystemd-shared_257~rc2-3_amd64.deb ... Unpacking libsystemd-shared:amd64 (257~rc2-3) ... Selecting previously unselected package systemd. Preparing to unpack .../systemd_257~rc2-3_amd64.deb ... Unpacking systemd (257~rc2-3) ... Setting up libapparmor1:amd64 (3.1.7-1+b3) ... Setting up libsystemd-shared:amd64 (257~rc2-3) ... Setting up systemd (257~rc2-3) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20922 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_257~rc2-3_amd64.deb ... Unpacking systemd-sysv (257~rc2-3) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.14.10-6_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-6) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.14.10-6_amd64.deb ... Unpacking dbus-bin (1.14.10-6) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.14.10-6_all.deb ... Unpacking dbus-session-bus-common (1.14.10-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../04-libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../05-dbus-daemon_1.14.10-6_amd64.deb ... Unpacking dbus-daemon (1.14.10-6) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../06-dbus-system-bus-common_1.14.10-6_all.deb ... Unpacking dbus-system-bus-common (1.14.10-6) ... Selecting previously unselected package dbus. Preparing to unpack .../07-dbus_1.14.10-6_amd64.deb ... Unpacking dbus (1.14.10-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../09-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package flex. Preparing to unpack .../11-flex_2.6.4-8.2+b3_amd64.deb ... Unpacking flex (2.6.4-8.2+b3) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../12-libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../13-python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21539 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.7-1_amd64.deb ... Unpacking python3-minimal (3.12.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.7-1) ... Setting up python3-minimal (3.12.7-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 22601 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.7-1_amd64.deb ... Unpacking python3 (3.12.7-1) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../001-libpython3.13-minimal_3.13.0-2_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.0-2) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../002-python3.13-minimal_3.13.0-2_amd64.deb ... Unpacking python3.13-minimal (3.13.0-2) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../003-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../004-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. 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Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up x11-common (1:7.7+23.1) ... Running in chroot, ignoring request. Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libtry-tiny-perl (0.32-1) ... Setting up libsensors-config (1:3.6.0-10) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up perl-openssl-defaults:amd64 (7+b2) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up xkb-data (2.42-1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libcom-err2:amd64 (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libmagic-dev:amd64 (1:5.45-3+b1) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libpcre2-16-0:amd64 (10.44-4) ... Setting up libaec0:amd64 (1.1.3-1+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Nov 21 01:39:56 UTC 2024. Universal Time is now: Thu Nov 21 01:39:56 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... Setting up libpython3.13-minimal:amd64 (3.13.0-2) ... Setting up libasound2-data (1.2.12-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:amd64 (4.13.3-1) ... Setting up libpcre2-32-0:amd64 (10.44-4) ... Setting up libglib2.0-0t64:amd64 (2.82.2-3) ... Setting up libunbound8:amd64 (1.22.0-1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-2+b2) ... Setting up libasound2t64:amd64 (1.2.12-1+b1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libgnutls-dane0t64:amd64 (3.8.8-2) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libjpeg62-turbo-dev:amd64 (1:2.1.5-3+b1) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.36-1) ... Setting up gnupg-l10n (2.2.45-2) ... Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libavahi-common-data:amd64 (0.8-13+b3) ... Setting up libdbus-1-3:amd64 (1.14.10-6) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up comerr-dev:amd64 (2.1-1.47.1-1+b1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:amd64 (3.3.2-2) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.22.5-2) ... Setting up binfmt-support (2.2.2-7) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Created symlink '/etc/systemd/system/multi-user.target.wants/binfmt-support.service' -> '/usr/lib/systemd/system/binfmt-support.service'. Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up icu-devtools (72.1-5+b1) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up d-shlibs (0.107) ... Setting up libipc-run-perl (20231003.0-2) ... Setting up libsepol-dev:amd64 (3.7-1) ... Setting up libpcsclite1:amd64 (2.3.0-3) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libsensors5:amd64 (1:3.6.0-10+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libidn2-dev:amd64 (2.3.7-2+b1) ... Setting up libglapi-mesa:amd64 (24.2.7-1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libgfortran5:amd64 (14.2.0-8) ... Setting up libvulkan1:amd64 (1.3.296.0-1) ... Setting up autoconf (2.72-3) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up liblzma-dev:amd64 (5.6.3-1+b1) ... Setting up libxcb-dri2-0:amd64 (1.17.0-2+b1) ... Setting up libgif7:amd64 (5.2.2-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libpcre2-posix3:amd64 (10.44-4) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:amd64 (1.3-1+b2) ... Setting up at-spi2-common (2.54.0-1) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.14.10-6) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libassuan9:amd64 (3.0.1-2) ... Setting up procps (2:4.0.4-6) ... Setting up bison (2:3.8.2+dfsg-1+b2) ... update-alternatives: using /usr/bin/bison.yacc to provide /usr/bin/yacc (yacc) in auto mode Setting up librole-tiny-perl (2.002004-1) ... Setting up python3.13-minimal (3.13.0-2) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up ncbi-vdb-data (3.0.9+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.4) ... Setting up libabsl20230802:amd64 (20230802.1-4) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b4) ... Setting up libsam-extract3:amd64 (3.0.9+dfsg-2) ... Setting up cmake-data (3.31.0-1) ... Setting up librhash1:amd64 (1.4.5-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libwayland-egl1:amd64 (1.23.0-1+b1) ... Setting up libmbedcrypto16:amd64 (3.6.2-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up dbus-system-bus-common (1.14.10-6) ... useradd: Warning: missing or non-executable shell '/usr/sbin/nologin' Setting up libfile-homedir-perl (1.006-2) ... Setting up libtasn1-6-dev:amd64 (4.19.0-3+b3) ... Setting up openssl (3.3.2-2) ... Setting up libdrm-common (2.4.123-1) ... Setting up libxcomposite1:amd64 (1:0.4.6-1) ... Setting up readline-common (8.2-5) ... Setting up libicu-dev:amd64 (72.1-5+b1) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up liburi-perl (5.30-1) ... Setting up dbus-bin (1.14.10-6) ... Setting up libsam-extract-dev:amd64 (3.0.9+dfsg-2) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b6) ... Setting up libfile-touch-perl (0.12-2) ... Setting up libp11-kit-dev:amd64 (0.25.5-2+b1) ... Setting up libsz2:amd64 (1.1.3-1+b1) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up libxkbcommon0:amd64 (1.7.0-1) ... Setting up libwayland-client0:amd64 (1.23.0-1+b1) ... Setting up libnet-ssleay-perl:amd64 (1.94-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.2.1-4+b1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Setting up libllvm19:amd64 (1:19.1.3-2) ... Setting up libx11-xcb1:amd64 (2:1.8.10-2) ... Setting up libhttp-date-perl (6.06-1) ... Setting up libre2-11:amd64 (20240501-3+b1) ... Setting up flex (2.6.4-8.2+b3) ... Setting up gettext (0.22.5-2) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-2+b2) ... Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libpcre2-dev:amd64 (10.44-4) ... Setting up nettle-dev:amd64 (3.10-1+b1) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up jarwrapper (0.80) ... Setting up libtool (2.4.7-8) ... Setting up libselinux1-dev:amd64 (3.7-3+b1) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libaec-dev:amd64 (1.1.3-1+b1) ... Setting up libavahi-common3:amd64 (0.8-13+b3) ... Setting up libjpeg-dev:amd64 (1:2.1.5-3+b1) ... Setting up libcloudproviders0:amd64 (0.3.6-1+b1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libnet-http-perl (6.23-1) ... Setting up libnss3:amd64 (2:3.106-1) ... Setting up dbus-daemon (1.14.10-6) ... Setting up libfuse-dev:amd64 (2.9.9-9) ... Setting up libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libcolord2:amd64 (1.4.7-1+b2) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libdconf1:amd64 (0.40.0-4+b3) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libxml2-dev:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libmbedx509-7:amd64 (3.6.2-3) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b2) ... Setting up libldap-dev:amd64 (2.5.18+dfsg-3+b1) ... Setting up dbus (1.14.10-6) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b1) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b2) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libabsl-dev:amd64 (20230802.1-4) ... Setting up libmbedtls21:amd64 (3.6.2-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.123-1) ... Setting up groff-base (1.23.0-5) ... Setting up libwayland-cursor0:amd64 (1.23.0-1+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b1) ... Setting up gpgconf (2.2.45-2) ... Setting up libpam-systemd:amd64 (257~rc2-3) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1+b1) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libre2-dev:amd64 (20240501-3+b1) ... Setting up libarchive13t64:amd64 (3.7.4-1.1) ... Setting up libpython3.13-stdlib:amd64 (3.13.0-2) ... Setting up libavahi-client3:amd64 (0.8-13+b3) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.45-2) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libdrm-amdgpu1:amd64 (2.4.123-1) ... Setting up libgnutls28-dev:amd64 (3.8.8-2) ... Setting up gtk-update-icon-cache (4.16.5+ds-2) ... Setting up libnghttp2-dev:amd64 (1.64.0-1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up gpg-agent (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up libcurl4t64:amd64 (8.11.0-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.0-2) ... Setting up libdrm-radeon1:amd64 (2.4.123-1) ... Setting up libxtst6:amd64 (2:1.2.3-1.1+b2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.2-1+b1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up gpgsm (2.2.45-2) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libdrm-intel1:amd64 (2.4.123-1) ... Setting up libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.2-2) ... Setting up dirmngr (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/dirmngr.socket' -> '/usr/lib/systemd/user/dirmngr.socket'. Setting up dbus-user-session (1.14.10-6) ... Setting up adwaita-icon-theme (47.0-2) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.016-2) ... Setting up libgssrpc4t64:amd64 (1.21.3-3) ... Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libncbi-wvdb3:amd64 (3.0.9+dfsg-2) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up gnupg (2.2.45-2) ... Setting up cmake (3.31.0-1) ... Setting up libcairo-gobject2:amd64 (1.18.2-2) ... Setting up libncbi-wvdb-dev:amd64 (3.0.9+dfsg-2) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libhdf5-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libcups2t64:amd64 (2.4.10-2) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-3) ... Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Setting up libhdf5-hl-100t64:amd64 (1.10.10+repack-4) ... Setting up mesa-libgallium:amd64 (24.2.7-1) ... Setting up libpython3.12-stdlib:amd64 (3.12.7-3) ... Setting up libkdb5-10t64:amd64 (1.21.3-3) ... Setting up libgbm1:amd64 (24.2.7-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up python3.12 (3.12.7-3) ... Setting up libhdf5-cpp-103-1t64:amd64 (1.10.10+repack-4) ... Setting up libgl1-mesa-dri:amd64 (24.2.7-1) ... Setting up libhdf5-fortran-102t64:amd64 (1.10.10+repack-4) ... Setting up debhelper (13.20) ... Setting up dconf-service (0.40.0-4+b3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-3) ... Setting up libncbi-vdb-dev:amd64 (3.0.9+dfsg-2) ... Setting up libhdf5-hl-cpp-100t64:amd64 (1.10.10+repack-4) ... Setting up libpython3-stdlib:amd64 (3.12.7-1) ... Setting up krb5-multidev:amd64 (1.21.3-3) ... Setting up libglx-mesa0:amd64 (24.2.7-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-4+b3) ... Setting up libhdf5-hl-fortran-100t64:amd64 (1.10.10+repack-4) ... Setting up python3 (3.12.7-1) ... Setting up python3-zipp (3.21.0-1) ... Setting up python3-autocommand (2.2.2-3) ... Setting up libkrb5-dev:amd64 (1.21.3-3) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libcurl4-openssl-dev:amd64 (8.11.0-1) ... Setting up libhdf5-dev (1.10.10+repack-4) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up python3-typing-extensions (4.12.2-2) ... Setting up libgtk-3-common (3.24.43-4) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.7-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-jaraco.text (4.0.0-1) ... Setting up libgtk-3-0t64:amd64 (3.24.43-4) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-setuptools (75.2.0-1) ... Setting up dh-python (6.20241024) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libwww-perl (6.77-1) ... Setting up devscripts (2.24.3) ... Setting up javahelper (0.80) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for systemd (257~rc2-3) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up openjdk-21-jre:amd64 (21.0.5+11-1) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.11) ... Setting up default-jre (2:1.21-76) ... Setting up openjdk-21-jdk:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../sra-sdk_3.0.9+dfsg-7_source.changes dpkg-buildpackage: info: source package sra-sdk dpkg-buildpackage: info: source version 3.0.9+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Aaron M. Ucko dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_clean rm -rf ngs/ngs-java/x86_64-linux-gnu rm -rf ngs/ngs-bam/x86_64-linux-gnu rm -f ngs/ngs-bam/Makefile.config rm -f ngs/ngs-bam/Makefile.config.install.linux.x86_64.prl rm -f ngs/ngs-bam/Makefile.config.linux.x86_64 rm -f ngs/ngs-bam/reconfigure rm -rf ngs/ngs-sdk/ngs/unix/generic rm -rf ngs/ngs-sdk/x86_64-linux-gnu rm -rf ngs/ngs-python/build ngs/ngs-python/dist rm -rf ngs/ngs-python/ngs.egg-info find test tools -name actual -type d | xargs -rt rm -rf rm -rf ngs/ngs-*/examples/actual/* rm -fv test/*/*/tmp.kfg rm -rf libs/ngs-vdb/test/data/SparseFragmentBlobs rm -rf test/external/vdb-dump/data test/loaders/bam-load/out.sra find tools/loaders/general-loader/test -name input | xargs -rt rm -rf rm -f ngs/ngs-sdk/examples/actual.txt rm debian/libngs-jni.links rm: cannot remove 'debian/libngs-jni.links': No such file or directory make[1]: [debian/rules:48: override_dh_auto_clean] Error 1 (ignored) make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake \ --with python3,javahelper,jh_maven_repo_helper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_configure -- -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu \ -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON \ -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON \ -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF \ -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DVDB_LIBDIR=/usr/lib/x86_64-linux-gnu -DVDB_INCDIR=/usr/include/ncbi-vdb -DBUILD_TOOLS_LOADERS=ON -DBUILD_TOOLS_INTERNAL=ON -DBUILD_TOOLS_TEST_TOOLS=ON -DCMAKE_SKIP_RPATH=ON -DTOOLS_ONLY=OFF -DCOMPILER_OPTION_SSE42_SUPPORTED=FALSE .. CMAKE_VERSION=3.31.0 -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at build/env.cmake:32 (cmake_policy): The OLD behavior for policy CMP0115 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. Call Stack (most recent call first): CMakeLists.txt:62 (include) BUILD_TOOLS_INTERNAL=ON BUILD_TOOLS_LOADERS=ON BUILD_TOOLS_TEST_TOOLS=ON TOOLS_ONLY=OFF VERSION=3.0.9 -- Found FLEX: /usr/bin/flex (found suitable version "2.6.4", minimum required is "2.6") -- Found BISON: /usr/bin/bison (found suitable version "3.8.2", minimum required is "3") -- Found LibXml2: /usr/lib/x86_64-linux-gnu/libxml2.so (found version "2.9.14") LIBXML2_INCLUDE_DIR=/usr/include/libxml2 LIBXML2_LIBRARIES=/usr/lib/x86_64-linux-gnu/libxml2.so -- Found Java: /usr/bin/java (found version "21.0.5") found components: Development -- Found Python3: /usr/bin/python3 (found version "3.12.7") found components: Interpreter Using ncbi-vdb interfaces: /usr/include/ncbi-vdb Using ncbi-vdb binary libraries: /usr/lib/x86_64-linux-gnu -- Looking for C++ include mbedtls/md.h -- Looking for C++ include mbedtls/md.h - not found RUN_SANITIZER_TESTS: OFF -- Found JNI: /usr/lib/jvm/default-java/include found components: AWT JVM -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE RE2_FOUND=FALSE SharQ is not built: ZLIB_FOUND=TRUE BZip2_FOUND=TRUE Threads_FOUND=TRUE RE2_FOUND=FALSE -- Found HDF5: /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libcrypto.so;/usr/lib/x86_64-linux-gnu/libcurl.so;/usr/lib/x86_64-linux-gnu/libpthread.a;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.a;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.10") found components: C CMake Deprecation Warning at tools/test-tools/qa-stats/CMakeLists.txt:1 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value or use a ... suffix to tell CMake that the project does not need compatibility with older versions. RE2_FOUND=FALSE -- Configuring done (4.7s) -- Generating done (1.7s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_linkjars -O--buildsystem=cmake Duplicate specification "u=s" for option "u" dh_auto_build -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/depend make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/depend make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/depend make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/depend make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared/CMakeFiles/tk-version.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/depend make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/depend make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs/CMakeFiles/ngs.dir/DependInfo.cmake "--color=" make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/depend make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/DependInfo.cmake "--color=" make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/DependInfo.cmake "--color=" make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/depend make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/DependInfo.cmake "--color=" make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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tools/external/vdb-config/tui/CMakeFiles/tui.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp/CMakeFiles/ascp.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/build make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javadoc -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc -sourcepath "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java" gov.nih.nlm.ncbi.ngs ngs make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 0%] Building C object shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/build [ 0%] Building C object ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o [ 0%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-py\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o -MF CMakeFiles/ngs-py.dir/py_Manager.c.o.d -o CMakeFiles/ngs-py.dir/py_Manager.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py/py_Manager.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o -MF CMakeFiles/ngs-jni.dir/jni_Manager.c.o.d -o CMakeFiles/ngs-jni.dir/jni_Manager.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_Manager.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"shared\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o -MF CMakeFiles/tk-version.dir/toolkit.vers.c.o.d -o CMakeFiles/tk-version.dir/toolkit.vers.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 0%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o [ 0%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadCollectionItf.cpp [ 0%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o [ 1%] Building C object libs/loader/CMakeFiles/loader.dir/progressbar.c.o [ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o [ 1%] Building Java objects for ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_AlignmentItf.cpp [ 1%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o [ 1%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o [ 2%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadCollection.cpp [ 2%] Building C object libs/kxml/CMakeFiles/kxml.dir/xml.c.o [ 2%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/progressbar.c.o -MF CMakeFiles/loader.dir/progressbar.c.o.d -o CMakeFiles/loader.dir/progressbar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/progressbar.c [ 2%] Building C object libs/ascp/CMakeFiles/ascp.dir/ascp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadCollectionItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReadCollection.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadCollectionItf.cpp [ 2%] Building CXX object libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o -MF CMakeFiles/diagnose.dir/diagnose.c.o.d -o CMakeFiles/diagnose.dir/diagnose.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose/diagnose.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/ascp.c.o -MF CMakeFiles/ascp.dir/ascp.c.o.d -o CMakeFiles/ascp.dir/ascp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/ascp.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -MF CMakeFiles/ngs.dir/NCBI-NGS.c.o.d -o CMakeFiles/ngs.dir/NCBI-NGS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NCBI-NGS.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xml.c.o -MF CMakeFiles/kxml.dir/xml.c.o.d -o CMakeFiles/kxml.dir/xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o -MF CMakeFiles/general-writer.dir/general-writer.cpp.o.d -o CMakeFiles/general-writer.dir/general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/general-writer.cpp [ 2%] Building CXX object tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -MF CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o.d -o CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_cpp.cpp [ 3%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o -MF CMakeFiles/tui.dir/dir_dlg.c.o.d -o CMakeFiles/tui.dir/dir_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/dir_dlg.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -h ./jni @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_sources [ 3%] Linking C static library ../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -P CMakeFiles/tk-version.dir/cmake_clean_target.cmake [ 3%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -MF CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_PileupEvent.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -E cmake_link_script CMakeFiles/tk-version.dir/link.txt --verbose=1 [ 3%] Linking C static library ../../../ilib/libngs-py.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -P CMakeFiles/ngs-py.dir/cmake_clean_target.cmake /usr/bin/ar qc ../ilib/libtk-version.a "CMakeFiles/tk-version.dir/toolkit.vers.c.o" /usr/bin/ranlib ../ilib/libtk-version.a [ 3%] Building C object libs/loader/CMakeFiles/loader.dir/loader-file.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-file.c.o -MF CMakeFiles/loader.dir/loader-file.c.o.d -o CMakeFiles/loader.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-file.c [ 3%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o -MF CMakeFiles/ngs-jni.dir/jni_String.c.o.d -o CMakeFiles/ngs-jni.dir/jni_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_String.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-py.dir/link.txt --verbose=1 [ 3%] Built target tk-version make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool/CMakeFiles/sratools.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/build /usr/bin/ar qc ../../../ilib/libngs-py.a "CMakeFiles/ngs-py.dir/py_Manager.c.o" /usr/bin/ranlib ../../../ilib/libngs-py.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 3%] Built target ngs-py make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/depend [ 3%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -MF CMakeFiles/sratools.dir/sratools.cpp.o.d -o CMakeFiles/sratools.dir/sratools.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp [ 3%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -MF CMakeFiles/tui.dir/eventring.c.o.d -o CMakeFiles/tui.dir/eventring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/eventring.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info/CMakeFiles/sra-info.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 3%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/main.cpp.o -MF CMakeFiles/sra-info.dir/main.cpp.o.d -o CMakeFiles/sra-info.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/main.cpp [ 3%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -MF CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o.d -o CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_ErrorMsg.c [ 3%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o -MF CMakeFiles/tui.dir/file_dlg.c.o.d -o CMakeFiles/tui.dir/file_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/file_dlg.c [ 3%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/PileupItf.cpp [ 4%] Linking C static library ../../../ilib/libngs-jni.a [ 4%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -P CMakeFiles/ngs-jni.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReferenceSequence.cpp [ 4%] Building C object libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -Wno-unused-result -MD -MT libs/ascp/CMakeFiles/ascp.dir/unix/connect.c.o -MF CMakeFiles/ascp.dir/unix/connect.c.o.d -o CMakeFiles/ascp.dir/unix/connect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/unix/connect.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-jni.dir/link.txt --verbose=1 [ 4%] Building C object libs/loader/CMakeFiles/loader.dir/loader-meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-meta.c.o -MF CMakeFiles/loader.dir/loader-meta.c.o.d -o CMakeFiles/loader.dir/loader-meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-meta.c /usr/bin/ar qc ../../../ilib/libngs-jni.a "CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "CMakeFiles/ngs-jni.dir/jni_String.c.o" "CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../../ilib/libngs-jni.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 4%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_AlignmentIteratorItf.cpp [ 4%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlobIterator.cpp [ 4%] Built target ngs-jni [ 4%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o [ 4%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && 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tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o -MF CMakeFiles/ngs.dir/CSRA1_Pileup.c.o.d -o 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 4%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/line_policy.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/queue-file.c.o -MF CMakeFiles/loader.dir/queue-file.c.o.d -o CMakeFiles/loader.dir/queue-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/queue-file.c [ 4%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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&& /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceItf.cpp Loading source files for package gov.nih.nlm.ncbi.ngs... 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-rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xtoc.c.o -MF CMakeFiles/kxml.dir/xtoc.c.o.d -o CMakeFiles/kxml.dir/xtoc.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc.c [ 5%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o -MF CMakeFiles/tui.dir/screen.c.o.d -o CMakeFiles/tui.dir/screen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/screen.c [ 5%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentItf.cpp [ 6%] Building C object libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o -MF CMakeFiles/ascp.dir/linux/ascp-path.c.o.d -o CMakeFiles/ascp.dir/linux/ascp-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/linux/ascp-path.c [ 6%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReferenceIterator.cpp Constructing Javadoc information... [ 6%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlob.cpp [ 6%] Building C object libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o -MF CMakeFiles/loader.dir/alignment-writer.c.o.d -o CMakeFiles/loader.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/alignment-writer.c [ 6%] Linking CXX static library ../../../../ilib/libtui_cpp.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui_cpp.dir/cmake_clean_target.cmake In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp:59: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 6%] Linking C static library ../../ilib/libascp.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -P CMakeFiles/ascp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui_cpp.dir/link.txt --verbose=1 [ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o -MF CMakeFiles/tui.dir/string_cache.c.o.d -o CMakeFiles/tui.dir/string_cache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/string_cache.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ascp.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../../ilib/libtui_cpp.a CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o /usr/bin/ranlib ../../../../ilib/libtui_cpp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/ar qc ../../ilib/libascp.a CMakeFiles/ascp.dir/ascp.c.o CMakeFiles/ascp.dir/unix/connect.c.o "CMakeFiles/ascp.dir/linux/ascp-path.c.o" /usr/bin/ranlib ../../ilib/libascp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 6%] Built target tui_cpp [ 6%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar.dir/DependInfo.cmake "--color=" [ 6%] Built target ascp make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+.dir/DependInfo.cmake "--color=" [ 6%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 6%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -MF CMakeFiles/kar.dir/kar-path.c.o.d -o CMakeFiles/kar.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c [ 6%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o -MF CMakeFiles/kar+.dir/kar-path.c.o.d -o CMakeFiles/kar+.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c [ 6%] Building C object libs/loader/CMakeFiles/loader.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-reader.c.o -MF CMakeFiles/loader.dir/common-reader.c.o.d -o CMakeFiles/loader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-reader.c [ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -MF CMakeFiles/tui.dir/tui.c.o.d -o CMakeFiles/tui.dir/tui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui.c [ 6%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -MF CMakeFiles/kar.dir/kar-args.c.o.d -o CMakeFiles/kar.dir/kar-args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-args.c [ 6%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -MF CMakeFiles/kar+.dir/kar+args.c.o.d -o CMakeFiles/kar+.dir/kar+args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+args.c [ 6%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Reference.cpp [ 6%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -MF CMakeFiles/ngs.dir/CSRA1_Alignment.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Alignment.c [ 6%] Linking C static library ../../ilib/libkxml.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -P CMakeFiles/kxml.dir/cmake_clean_target.cmake [ 6%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentIteratorItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -E cmake_link_script CMakeFiles/kxml.dir/link.txt --verbose=1 [ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReference.cpp [ 7%] Building C object libs/loader/CMakeFiles/loader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-writer.c.o -MF CMakeFiles/loader.dir/common-writer.c.o.d -o CMakeFiles/loader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-writer.c /usr/bin/ar qc ../../ilib/libkxml.a CMakeFiles/kxml.dir/xml.c.o "CMakeFiles/kxml.dir/xtoc-parsexml.c.o" CMakeFiles/kxml.dir/xtoc.c.o /usr/bin/ranlib ../../ilib/libkxml.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 7%] Built target kxml make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+meta.dir/DependInfo.cmake "--color=" [ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -MF CMakeFiles/kar+meta.dir/kar+util.c.o.d -o CMakeFiles/kar+meta.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c [ 7%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -MF CMakeFiles/kar.dir/kar.c.o.d -o CMakeFiles/kar.dir/kar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar.c Creating destination directory: "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/" [ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceSequenceItf.cpp [ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceSequenceItf.cpp Building index for all the packages and classes... Standard Doclet version 21.0.5+11-Debian-1 Building tree for all the packages and classes... [ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PackageItf.cpp ngs/itf/Refcount.java:57: warning: [removal] finalize() in Object has been deprecated and marked for removal protected void finalize () ^ [ 8%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o -MF CMakeFiles/kar+.dir/kar+util.c.o.d -o CMakeFiles/kar+.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ [ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceSequenceItf.cpp Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Alignment.html... [ 8%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupIterator.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:140: warning: no comment static int all = primaryAlignment | secondaryAlignment; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:176: warning: no comment static int clipLeft = 0; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:177: warning: no comment static int clipRight = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:132: warning: no comment static int maxMapQuality = 8; // pass alignments with mappingQuality <= param ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:131: warning: no comment static int minMapQuality = 4; // pass alignments with mappingQuality >= param ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:133: warning: no comment static int noWraparound = 16; // do not include leading wrapped around alignments to circular references ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:130: warning: no comment static int passDuplicates = 2; // either a PCR or optical duplicate ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:129: warning: no comment static int passFailed = 1; // reads rejected due to platform/vendor quality criteria ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:138: warning: no comment static int primaryAlignment = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:139: warning: no comment static int secondaryAlignment = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:134: warning: no comment static int startWithinSlice = 32; // change slice intersection criteria so that start pos is within slice ^ [ 8%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -MF CMakeFiles/kar+meta.dir/kar+meta.c.o.d -o CMakeFiles/kar+meta.dir/kar+meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+meta.c [ 8%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlob.cpp [ 8%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/AlignmentItf.cpp [ 8%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -MF CMakeFiles/sra-info.dir/sra-info.cpp.o.d -o CMakeFiles/sra-info.dir/sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/sra-info.cpp [ 8%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReferenceWindow.c [ 8%] Building C object libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/AlignmentIterator.html... [ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o [ 8%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -MF CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o.d -o CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/utf8-like-int-codec.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o -MF CMakeFiles/kar+.dir/kar+.c.o.d -o CMakeFiles/kar+.dir/kar+.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+.c [ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ErrorMsg.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupIteratorItf.cpp [ 8%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:38: warning: no main description cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupEventItf.cpp * @return What went wrong ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:49: warning: no comment public ErrorMsg () ^ [ 8%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:53: warning: no comment public ErrorMsg ( String message ) ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:58: warning: no comment public ErrorMsg ( ErrorMsg obj ) ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -MF CMakeFiles/diagnose.dir/endpoint.c.o.d -o CMakeFiles/diagnose.dir/endpoint.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose/endpoint.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Fragment.html... [ 8%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlobIterator.cpp [ 8%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Pileup.cpp Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/FragmentIterator.html... [ 8%] Linking C static library ../../ilib/libdiagnose.a Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/LibDependencies.html... [ 8%] Linking CXX static library ../../ilib/libgeneral-writer.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -P CMakeFiles/diagnose.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -P CMakeFiles/general-writer.dir/cmake_clean_target.cmake /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: no comment public class LibDependencies { ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:34: warning: no comment public final static String NCBI_VDB = "ncbi-ngs"; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:30: warning: no comment public final static String NGS_SDK = "ngs-sdk"; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: use of default constructor, which does not provide a comment public class LibDependencies { ^ Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/NGS.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: no comment public class NGS ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: use of default constructor, which does not provide a comment public class NGS ^ [ 8%] Linking C executable ../../../bin/kar [ 8%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o -MF CMakeFiles/tui.dir/tui_dlg_helper.c.o.d -o CMakeFiles/tui.dir/tui_dlg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg_helper.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:133: warning: no comment public static void main(String[] args) { ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -E cmake_link_script CMakeFiles/diagnose.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-writer.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Package.html... [ 8%] Linking C executable ../../../bin/kar+meta cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+meta.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:37: warning: no main description * @return package version as a 1..3 part string ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:33: warning: use of default constructor, which does not provide a comment public class Package ^ [ 8%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadGroupItf.cpp /usr/bin/ar qc ../../ilib/libgeneral-writer.a "CMakeFiles/general-writer.dir/general-writer.cpp.o" "CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o" /usr/bin/ranlib ../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Pileup.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Pileup.java:58: warning: no main description * @return base at current Reference position ^ /usr/bin/ar qc ../../ilib/libdiagnose.a CMakeFiles/diagnose.dir/diagnose.c.o CMakeFiles/diagnose.dir/endpoint.c.o /usr/bin/ranlib ../../ilib/libdiagnose.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 8%] Built target general-writer make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/depend [ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEvent.html... /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar.dir/link.d "CMakeFiles/kar.dir/kar-path.c.o" "CMakeFiles/kar.dir/kar-args.c.o" CMakeFiles/kar.dir/kar.c.o -o ../../../bin/kar /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:118: warning: no comment static int alignment_minus_strand = 0x20; ^ [ 8%] Built target diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:116: warning: no comment static int alignment_start = 0x80; ^ [ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:117: warning: no comment static int alignment_stop = 0x40; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:98: warning: no comment static int deletion = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:104: warning: no comment static int insertion = 0x08; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupEventItf.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:112: warning: no comment static int insertion_before_deletion = insertion | deletion; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:107: warning: no comment static int insertion_before_match = insertion | match; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:108: warning: no comment static int insertion_before_mismatch = insertion | mismatch; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:180: warning: no comment static int intron_minus = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:179: warning: no comment static int intron_plus = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:181: warning: no comment static int intron_unknown = 3; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:97: warning: no comment static int mismatch = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:191: warning: no comment static int read_gap = 5; ^ make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/depend /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:186: warning: no comment static int read_overlap = 4; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:113: warning: no comment static int replacement = insertion_before_deletion; ^ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar kar.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3.0.9 kar.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3 kar make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEventIterator.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 8%] Building C object tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -MF CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o.d -o CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dump-blob-boundaries.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupIterator.html... [ 9%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o [ 9%] Built target kar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o -MF CMakeFiles/tui.dir/tui_menu.c.o.d -o CMakeFiles/tui.dir/tui_menu.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_menu.c make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/depend [ 9%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o -MF CMakeFiles/samview.dir/sam.c.o.d -o CMakeFiles/samview.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c [ 10%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Read.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -MF CMakeFiles/sra-sort.dir/caps.c.o.d -o CMakeFiles/sra-sort.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+meta.dir/link.d CMakeFiles/kar+meta.dir/kar+util.c.o CMakeFiles/kar+meta.dir/kar+meta.c.o -o ../../../bin/kar+meta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:35: warning: no comment public interface Read ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:79: warning: no comment static int aligned = fullyAligned | partiallyAligned; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+meta.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:81: warning: no comment static int all = aligned | unaligned; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:78: warning: no comment static int partiallyAligned = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:80: warning: no comment static int unaligned = 4; ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+meta kar+meta.3.0.9 make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build [ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -MF CMakeFiles/ngs.dir/CSRA1_Reference.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Reference.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3.0.9 kar+meta.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3 kar+meta [ 10%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -MF CMakeFiles/sra-sort-cg.dir/caps.c.o.d -o CMakeFiles/sra-sort-cg.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadCollection.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:88: warning: no main description * @param spec the name of a contained read group ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:121: warning: no main description * @param spec the name of a contained Reference ^ [ 10%] Built target kar+meta make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/depend [ 10%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbAlignment.cpp [ 10%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEventIterator.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build [ 11%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupEventIteratorItf.cpp [ 11%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -MF CMakeFiles/sra-sort.dir/mem.c.o.d -o CMakeFiles/sra-sort.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroup.html... [ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -MF CMakeFiles/fastqloader.dir/spot-assembler.c.o.d -o CMakeFiles/fastqloader.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroupIterator.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadIterator.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadIterator.java:34: warning: no comment public interface ReadIterator ^ Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Reference.html... [ 11%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o -MF CMakeFiles/sra-sort-cg.dir/mem.c.o.d -o CMakeFiles/sra-sort-cg.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c [ 12%] Linking C executable ../../../bin/dump-blob-boundaries cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/dump-blob-boundaries.dir/link.txt --verbose=1 [ 13%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadItf.cpp [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o -MF CMakeFiles/sra-sort.dir/membank.c.o.d -o CMakeFiles/sra-sort.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. 1 warning Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceIterator.html... [ 13%] Linking C executable ../../../bin/kar+ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceSequence.html... [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -MF CMakeFiles/sra-sort-cg.dir/membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/dump-blob-boundaries.dir/link.d "CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o" -o ../../../bin/dump-blob-boundaries /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Statistics.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-blob-boundaries.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_compiled_ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:41: warning: no comment static int int64 = 2; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:43: warning: no comment static int real = 4; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:40: warning: no comment static int string = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:42: warning: no comment static int uint64 = 3; ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv dump-blob-boundaries dump-blob-boundaries.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3.0.9 dump-blob-boundaries.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3 dump-blob-boundaries make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-summary.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-tree.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-summary.html... [ 13%] Built target dump-blob-boundaries [ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o [ 13%] Generating CMakeFiles/ngs-java.dir/java_class_filelist make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/depend Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-tree.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -MF CMakeFiles/sratools.dir/config.cpp.o.d -o CMakeFiles/sratools.dir/config.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/config.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/constant-values.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/serialized-form.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+.dir/link.d "CMakeFiles/kar+.dir/kar-path.c.o" CMakeFiles/kar+.dir/kar+args.c.o CMakeFiles/kar+.dir/kar+print.c.o CMakeFiles/kar+.dir/kar+util.c.o CMakeFiles/kar+.dir/kar+.c.o -o ../../../bin/kar+ /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+ kar+.3.0.9 [ 13%] Creating Java archive ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar @java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3.0.9 kar+.3 [ 13%] Building C object libs/loader/CMakeFiles/loader.dir/mmarray.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-tree.html... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/mmarray.c.o -MF CMakeFiles/loader.dir/mmarray.c.o.d -o CMakeFiles/loader.dir/mmarray.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/mmarray.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3 kar+ Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 13%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -MF CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o.d -o CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-gw-dumper.cpp [ 13%] Built target kar+ [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/depend Building index for all classes... cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -MF CMakeFiles/sra-sort.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allclasses-index.html... [ 13%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o -MF CMakeFiles/tui.dir/tui_palette.c.o.d -o CMakeFiles/tui.dir/tui_palette.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_palette.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allpackages-index.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index-all.html... make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c [ 13%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o -MF CMakeFiles/makeinputs.dir/makeinputs.cpp.o.d -o CMakeFiles/makeinputs.dir/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/makeinputs.cpp [ 13%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/AlignmentItf.cpp [ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEvent.cpp [ 13%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventIteratorItf.cpp [ 13%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o -MF CMakeFiles/fastqloader.dir/common-writer.c.o.d -o CMakeFiles/fastqloader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c [ 13%] Building C object libs/loader/CMakeFiles/loader.dir/reference-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -MF CMakeFiles/loader.dir/reference-writer.c.o.d -o CMakeFiles/loader.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/reference-writer.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/search.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-summary.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/help-doc.html... [ 13%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -MF CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o.d -o CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/NGS-VDB.cpp [ 13%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o 52 warnings cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o -MF CMakeFiles/tui.dir/tui_std_dlg.c.o.d -o CMakeFiles/tui.dir/tui_std_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_std_dlg.c [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-mmapbank.c.o [ 13%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/FragmentItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-mmapbank.c [ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o [ 13%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-mmapbank.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReadCollection.c [ 13%] Built target ngs-doc_javadoc make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 13%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -MF CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o.d -o CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 13%] Built target ngs-java [ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o -MF CMakeFiles/sra-sort.dir/except.c.o.d -o CMakeFiles/sra-sort.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -MF CMakeFiles/loader.dir/sequence-writer.c.o.d -o CMakeFiles/loader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/sequence-writer.c [ 14%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build cd 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CMakeFiles/tui.dir/tui_widget.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 14%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -MF CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o.d -o CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp [ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o -MF CMakeFiles/sra-sort-cg.dir/except.c.o.d -o CMakeFiles/sra-sort-cg.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c [ 14%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o [ 14%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/AlignmentIterator.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o -MF CMakeFiles/samview.dir/samview.c.o.d -o CMakeFiles/samview.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/samview.c [ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c [ 14%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventItf.cpp [ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c [ 14%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StatisticsItf.cpp [ 14%] Linking C static library ../../ilib/libloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -P CMakeFiles/loader.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/loader.dir/link.txt --verbose=1 [ 14%] Linking C executable ../../../bin/samview cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview.dir/link.txt --verbose=1 [ 14%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupIteratorItf.cpp [ 14%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o -MF CMakeFiles/ngs.dir/CSRA1_Read.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Read.c /usr/bin/ar qc ../../ilib/libloader.a CMakeFiles/loader.dir/progressbar.c.o "CMakeFiles/loader.dir/loader-file.c.o" "CMakeFiles/loader.dir/loader-meta.c.o" "CMakeFiles/loader.dir/queue-file.c.o" "CMakeFiles/loader.dir/alignment-writer.c.o" "CMakeFiles/loader.dir/common-reader.c.o" "CMakeFiles/loader.dir/common-writer.c.o" CMakeFiles/loader.dir/mmarray.c.o "CMakeFiles/loader.dir/reference-writer.c.o" "CMakeFiles/loader.dir/sequence-writer.c.o" /usr/bin/ranlib ../../ilib/libloader.a [ 14%] Linking CXX static library ../../ilib/libngs-vdb.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -P CMakeFiles/ngs-vdb.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-vdb.dir/link.txt --verbose=1 [ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o -MF CMakeFiles/sra-sort.dir/map-file.c.o.d -o CMakeFiles/sra-sort.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c [ 14%] Built target loader make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -MF CMakeFiles/sra-sort-cg.dir/map-file.c.o.d -o CMakeFiles/sra-sort-cg.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 15%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o [ 15%] Linking CXX executable ../../../../test-bin/test-gw-dumper cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o -MF CMakeFiles/sratools.dir/command-line.cpp.o.d -o CMakeFiles/sratools.dir/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-gw-dumper.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview.dir/link.d CMakeFiles/samview.dir/bam.c.o CMakeFiles/samview.dir/sam.c.o CMakeFiles/samview.dir/samview.c.o -o ../../../bin/samview /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lz cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview samview.3.0.9 /usr/bin/ar qc ../../ilib/libngs-vdb.a "CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o" "CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o" "CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o" "CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o" "CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o" /usr/bin/ranlib ../../ilib/libngs-vdb.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3.0.9 samview.3 [ 16%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3 samview cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -MF CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o.d -o CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/checklookup.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 16%] Built target ngs-vdb make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/DependInfo.cmake "--color=" [ 16%] Built target samview [ 16%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o -MF CMakeFiles/sra-sort.dir/col-pair.c.o.d -o CMakeFiles/sra-sort.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f 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-fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -MF CMakeFiles/fastqloader.dir/sequence-writer.c.o.d -o CMakeFiles/fastqloader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c [ 16%] Building C object tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-lock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o -MF CMakeFiles/vdb-lock.dir/vdb-lock.c.o.d -o CMakeFiles/vdb-lock.dir/vdb-lock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock/vdb-lock.c [ 16%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Alignment.cpp [ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/EBI_ReferenceSequence.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-gw-dumper.dir/link.d "CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o" -o ../../../../test-bin/test-gw-dumper ../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StringItf.cpp [ 17%] Built target test-gw-dumper make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/DependInfo.cmake "--color=" [ 17%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o -MF CMakeFiles/tui.dir/tui_widget_button.c.o.d -o CMakeFiles/tui.dir/tui_widget_button.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_button.c [ 17%] Linking C executable ../../../bin/vdb-lock make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-lock.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp: In function 'void run(const char*, bool, const int32_t*, const int32_t*, const int8_t*, int)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:76:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 76 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:45:20: note: 'gw' was declared here 45 | GeneralWriter *gw; | ^~ [ 17%] Building C object tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-unlock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -MF CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o.d -o CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock/vdb-unlock.c [ 17%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadCollectionItf.cpp [ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentIteratorItf.cpp [ 18%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -MF CMakeFiles/fastqloader.dir/common-reader.c.o.d -o CMakeFiles/fastqloader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c In file included from /usr/include/c++/14/ios:42, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc/general-writer/general-writer.hpp:34, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:30: In static member function 'static std::size_t std::char_traits::length(const char_type*)', inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const _CharT*, const _Alloc&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/14/bits/basic_string.h:653:49, inlined from 'void run(const char*, TestCaseType, const std::string*, int)' at /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:77:25: /usr/include/c++/14/bits/char_traits.h:391:32: warning: 'db_schema' may be used uninitialized [-Wmaybe-uninitialized] 391 | return __builtin_strlen(__s); | ~~~~~~~~~~~~~~~~^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp: In function 'void run(const char*, TestCaseType, const std::string*, int)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:57:21: note: 'db_schema' was declared here 57 | const char* db_schema; | ^~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:101:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 101 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:54:20: note: 'gw' was declared here 54 | GeneralWriter *gw; | ^~ [ 18%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_checkbox.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_checkbox.c.o -MF CMakeFiles/tui.dir/tui_widget_checkbox.c.o.d -o CMakeFiles/tui.dir/tui_widget_checkbox.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_checkbox.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-lock.dir/link.d "CMakeFiles/vdb-lock.dir/vdb-lock.c.o" -o ../../../bin/vdb-lock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-lock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-lock vdb-lock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3.0.9 vdb-lock.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3 vdb-lock make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 18%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -MF CMakeFiles/ngs.dir/SRA_Statistics.c.o.d -o CMakeFiles/ngs.dir/SRA_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Statistics.c [ 18%] Linking C executable ../../../bin/vdb-unlock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-unlock.dir/link.txt --verbose=1 [ 18%] Built target vdb-lock make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache/CMakeFiles/align-cache.dir/DependInfo.cmake "--color=" [ 18%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadGroupItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 18%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -MF CMakeFiles/tui.dir/tui_widget_grid.c.o.d -o CMakeFiles/tui.dir/tui_widget_grid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_grid.c [ 18%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -MF CMakeFiles/makeinputs.dir/testsource.cpp.o.d -o CMakeFiles/makeinputs.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp [ 19%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o -MF CMakeFiles/sra-sort.dir/row-set.c.o.d -o CMakeFiles/sra-sort.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c [ 19%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -MF CMakeFiles/align-cache.dir/align-cache.cpp.o.d -o CMakeFiles/align-cache.dir/align-cache.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/align-cache.cpp [ 19%] Linking CXX executable ../../../../../test-bin/bio-end-makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/bio-end-makeinputs.dir/link.txt --verbose=1 [ 19%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-unlock.dir/link.d "CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o" -o ../../../bin/vdb-unlock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm [ 19%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-unlock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-unlock vdb-unlock.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3.0.9 vdb-unlock.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3 vdb-unlock make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 19%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -MF CMakeFiles/fastqloader.dir/fastq-reader.c.o.d -o CMakeFiles/fastqloader.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c [ 19%] Built target vdb-unlock make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract/CMakeFiles/ccextract.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 19%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/Refcount.cpp [ 19%] Building C object tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ccextract\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -MF CMakeFiles/ccextract.dir/ccextract.c.o.d -o CMakeFiles/ccextract.dir/ccextract.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract/ccextract.c [ 20%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroupIterator.cpp [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c [ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bio-end-makeinputs.dir/link.d "CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o" -o ../../../../../test-bin/bio-end-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 20%] Built target bio-end-makeinputs make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat/CMakeFiles/copycat.dir/DependInfo.cmake "--color=" [ 21%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentItf.cpp [ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o -MF CMakeFiles/tui.dir/tui_widget_inputline.c.o.d -o CMakeFiles/tui.dir/tui_widget_inputline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_inputline.c make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 21%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o [ 21%] Linking CXX executable ../../../../../test-bin/idx-text-makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o -MF CMakeFiles/copycat.dir/copycat.c.o.d -o CMakeFiles/copycat.dir/copycat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/copycat.c [ 21%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-makeinputs.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c [ 21%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupItf.cpp [ 21%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o -MF CMakeFiles/align-cache.dir/helper.cpp.o.d -o CMakeFiles/align-cache.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/helper.cpp [ 21%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadItf.cpp [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o -MF CMakeFiles/sra-sort.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c [ 21%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_DB_ReadCollection.c [ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o -MF CMakeFiles/tui.dir/tui_widget_label.c.o.d -o CMakeFiles/tui.dir/tui_widget_label.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_label.c [ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o [ 21%] Linking C executable ../../../bin/ccextract cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccextract.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c [ 21%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrorMsg.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-makeinputs.dir/link.d "CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o" -o ../../../../../test-bin/idx-text-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o -MF CMakeFiles/tui.dir/tui_widget_progress.c.o.d -o CMakeFiles/tui.dir/tui_widget_progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_progress.c [ 22%] Built target idx-text-makeinputs make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 22%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroup.cpp [ 22%] Building C object tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-unused-result -MD -MT tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o -MF CMakeFiles/make-read-filter.dir/make-read-filter.c.o.d -o CMakeFiles/make-read-filter.dir/make-read-filter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter/make-read-filter.c [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c [ 22%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o -MF CMakeFiles/copycat.dir/ccfileformat.c.o.d -o CMakeFiles/copycat.dir/ccfileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o -MF CMakeFiles/tui.dir/tui_widget_radiobox.c.o.d -o CMakeFiles/tui.dir/tui_widget_radiobox.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_radiobox.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ccextract.dir/link.d CMakeFiles/ccextract.dir/ccextract.c.o -o ../../../bin/ccextract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ccextract.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ccextract ccextract.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3.0.9 ccextract.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3 ccextract make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 22%] Built target ccextract make -f tools/internal/md5cp/CMakeFiles/md5cp.dir/build.make tools/internal/md5cp/CMakeFiles/md5cp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/md5cp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp/CMakeFiles/md5cp.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/md5cp/CMakeFiles/md5cp.dir/build.make tools/internal/md5cp/CMakeFiles/md5cp.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 22%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -MF CMakeFiles/ngs.dir/SRA_Read.c.o.d -o CMakeFiles/ngs.dir/SRA_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Read.c [ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o -MF CMakeFiles/sra-sort.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c [ 22%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -MF CMakeFiles/tui.dir/tui_widget_spin_edit.c.o.d -o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_spin_edit.c [ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o [ 22%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c [ 22%] Building C object tools/internal/md5cp/CMakeFiles/md5cp.dir/md5cp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/md5cp/CMakeFiles/md5cp.dir/md5cp.c.o -MF CMakeFiles/md5cp.dir/md5cp.c.o.d -o CMakeFiles/md5cp.dir/md5cp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/md5cp/md5cp.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupIteratorItf.cpp [ 22%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -MF CMakeFiles/fastqloader.dir/id2name.c.o.d -o CMakeFiles/fastqloader.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c: In function 'CCFileFormatIsFastq': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:275:27: warning: 'seq_len' may be used uninitialized [-Wmaybe-uninitialized] 275 | if(quality_values_len != seq_len) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:193:12: note: 'seq_len' was declared here 193 | size_t seq_len,quality_values_len,seq_id_len; | ^~~~~~~ [ 23%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o -MF CMakeFiles/sratools.dir/run-source.cpp.o.d -o CMakeFiles/sratools.dir/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp [ 23%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupIteratorItf.cpp [ 23%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o -MF CMakeFiles/tui.dir/tui_widget_string_list.c.o.d -o CMakeFiles/tui.dir/tui_widget_string_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_string_list.c [ 23%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrBlock.cpp [ 23%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/FragmentItf.cpp [ 23%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o -MF CMakeFiles/copycat.dir/cctree.c.o.d -o CMakeFiles/copycat.dir/cctree.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree.c [ 24%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o -MF CMakeFiles/copycat.dir/cccat.c.o.d -o CMakeFiles/copycat.dir/cccat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cccat.c [ 24%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadIterator.cpp [ 24%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c [ 24%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c [ 24%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -MF CMakeFiles/tui.dir/tui_widget_tabhdr.c.o.d -o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_tabhdr.c [ 24%] Linking C executable ../../../bin/md5cp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cmake -E cmake_link_script CMakeFiles/md5cp.dir/link.txt --verbose=1 [ 24%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroup.c [ 24%] Linking C executable ../../../bin/make-read-filter cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/make-read-filter.dir/link.txt --verbose=1 [ 24%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o -MF CMakeFiles/tui.dir/linux/systui.c.o.d -o CMakeFiles/tui.dir/linux/systui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/linux/systui.c [ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadItf.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/md5cp.dir/link.d CMakeFiles/md5cp.dir/md5cp.c.o -o ../../../bin/md5cp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f md5cp.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv md5cp md5cp.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3.0.9 md5cp.3 [ 24%] Linking CXX static library ../../../ilib/libngs-adapt-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -P CMakeFiles/ngs-adapt-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3 md5cp [ 24%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/make-read-filter.dir/link.d "CMakeFiles/make-read-filter.dir/make-read-filter.c.o" -o ../../../bin/make-read-filter /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f make-read-filter.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-adapt-c++.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv make-read-filter make-read-filter.3.0.9 [ 24%] Built target md5cp make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3.0.9 make-read-filter.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3 make-read-filter make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build [ 24%] Built target make-read-filter make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy/CMakeFiles/meta-copy.dir/DependInfo.cmake "--color=" [ 24%] Linking CXX executable ../../../bin/align-cache cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-cache.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../ilib/libngs-adapt-c++.a "CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-adapt-c++.a [ 24%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o -MF CMakeFiles/copycat.dir/cctree-dump.c.o.d -o CMakeFiles/copycat.dir/cctree-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree-dump.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 25%] Building C object tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-cmp\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o -MF CMakeFiles/meta-cmp.dir/meta-cmp.c.o.d -o CMakeFiles/meta-cmp.dir/meta-cmp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp/meta-cmp.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build [ 25%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupItf.cpp [ 25%] Built target ngs-adapt-c++ make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair/CMakeFiles/meta-repair.dir/DependInfo.cmake "--color=" [ 25%] Building C object tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -MF CMakeFiles/meta-copy.dir/meta-copy.c.o.d -o CMakeFiles/meta-copy.dir/meta-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy/meta-copy.c [ 25%] Linking C static library ../../../ilib/libfastqloader.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -P CMakeFiles/fastqloader.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 25%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroupInfo.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastqloader.dir/link.txt --verbose=1 [ 25%] Building C object tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/meta-repair\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -MF CMakeFiles/meta-repair.dir/meta-repair.c.o.d -o CMakeFiles/meta-repair.dir/meta-repair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair/meta-repair.c [ 25%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadIteratorItf.cpp /usr/bin/ar qc ../../../ilib/libfastqloader.a "CMakeFiles/fastqloader.dir/spot-assembler.c.o" "CMakeFiles/fastqloader.dir/common-writer.c.o" "CMakeFiles/fastqloader.dir/sequence-writer.c.o" "CMakeFiles/fastqloader.dir/common-reader.c.o" "CMakeFiles/fastqloader.dir/fastq-reader.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o" CMakeFiles/fastqloader.dir/id2name.c.o /usr/bin/ranlib ../../../ilib/libfastqloader.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 25%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StatisticsItf.cpp [ 25%] Built target fastqloader make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/DependInfo.cmake "--color=" [ 25%] Linking CXX executable ../../../../test-bin/makeinputs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/makeinputs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 25%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c [ 25%] Linking C static library ../../../../ilib/libtui.a [ 26%] Building C object tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui.dir/cmake_clean_target.cmake [ 26%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Read.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Read.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -MF CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o.d -o CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/test-read-write-cursor.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-cache.dir/link.d "CMakeFiles/align-cache.dir/align-cache.cpp.o" "CMakeFiles/align-cache.dir/helper.cpp.o" -o ../../../bin/align-cache /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-cache.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-cache align-cache.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3.0.9 align-cache.3 [ 26%] Linking C executable ../../../bin/meta-cmp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui.dir/link.txt --verbose=1 [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-cmp.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o -MF CMakeFiles/sra-sort.dir/db-pair.c.o.d -o CMakeFiles/sra-sort.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3 align-cache make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadCollection.c [ 26%] Linking C executable ../../../bin/meta-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-copy.dir/link.txt --verbose=1 [ 26%] Built target align-cache make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/ar qc ../../../../ilib/libtui.a CMakeFiles/tui.dir/dir_dlg.c.o CMakeFiles/tui.dir/eventring.c.o CMakeFiles/tui.dir/file_dlg.c.o CMakeFiles/tui.dir/line_policy.c.o CMakeFiles/tui.dir/screen.c.o CMakeFiles/tui.dir/string_cache.c.o CMakeFiles/tui.dir/tui.c.o CMakeFiles/tui.dir/tui_dlg.c.o CMakeFiles/tui.dir/tui_dlg_helper.c.o CMakeFiles/tui.dir/tui_menu.c.o CMakeFiles/tui.dir/tui_palette.c.o CMakeFiles/tui.dir/tui_std_dlg.c.o CMakeFiles/tui.dir/tui_widget.c.o CMakeFiles/tui.dir/tui_widget_button.c.o CMakeFiles/tui.dir/tui_widget_checkbox.c.o CMakeFiles/tui.dir/tui_widget_grid.c.o CMakeFiles/tui.dir/tui_widget_inputline.c.o CMakeFiles/tui.dir/tui_widget_label.c.o CMakeFiles/tui.dir/tui_widget_progress.c.o CMakeFiles/tui.dir/tui_widget_radiobox.c.o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o CMakeFiles/tui.dir/tui_widget_string_list.c.o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o CMakeFiles/tui.dir/linux/systui.c.o /usr/bin/ranlib ../../../../ilib/libtui.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 26%] Building C object tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -MF CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o.d -o CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c [ 26%] Built target tui make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/makeinputs.dir/link.d CMakeFiles/makeinputs.dir/makeinputs.cpp.o CMakeFiles/makeinputs.dir/testsource.cpp.o -o ../../../../test-bin/makeinputs ../../../../ilib/libgeneral-writer.a -lncbi-vdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/DependInfo.cmake "--color=" [ 26%] Built target makeinputs make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build [ 26%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadIteratorItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-cmp.dir/link.d "CMakeFiles/meta-cmp.dir/meta-cmp.c.o" -o ../../../bin/meta-cmp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-cmp.3.0.9 [ 26%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o -MF CMakeFiles/vdb-copy.dir/context.c.o.d -o CMakeFiles/vdb-copy.dir/context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/context.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-cmp meta-cmp.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3DefaultRowEst': cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3.0.9 meta-cmp.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3 meta-cmp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-copy.dir/link.d "CMakeFiles/meta-copy.dir/meta-copy.c.o" -o ../../../bin/meta-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-copy.3.0.9 [ 26%] Linking C executable ../../../bin/test-read-write-cursor cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-read-write-cursor.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c:755:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 755 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-copy meta-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3.0.9 meta-copy.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3 meta-copy [ 26%] Built target meta-cmp make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact/CMakeFiles/check-redact.dir/DependInfo.cmake "--color=" [ 26%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -MF CMakeFiles/vdb-diff.dir/namelist_tools.c.o.d -o CMakeFiles/vdb-diff.dir/namelist_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/namelist_tools.c [ 26%] Linking CXX executable ../../../../../test-bin/idx-text-checklookup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-checklookup.dir/link.txt --verbose=1 [ 26%] Built target meta-copy make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/depend [ 26%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o [ 26%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o -MF CMakeFiles/copycat.dir/cctar.c.o.d -o CMakeFiles/copycat.dir/cctar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctar.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/DependInfo.cmake "--color=" make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/build In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:11540: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); | ^~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReferenceSequence.c [ 26%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -MF CMakeFiles/copycat.dir/ccsra.c.o.d -o CMakeFiles/copycat.dir/ccsra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsra.c [ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 27%] Building C object tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/check-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o -MF CMakeFiles/check-redact.dir/check-redact.c.o.d -o CMakeFiles/check-redact.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact/check-redact.c [ 27%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PackageItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PackageItf.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~ [ 27%] Building C object tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -MF CMakeFiles/crc32sum.dir/crc32sum.c.o.d -o CMakeFiles/crc32sum.dir/crc32sum.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum/crc32sum.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-read-write-cursor.dir/link.d "CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o" -o ../../../bin/test-read-write-cursor /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-read-write-cursor.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-read-write-cursor test-read-write-cursor.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3.0.9 test-read-write-cursor.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3 test-read-write-cursor make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' 102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); | ^~~~~~ [ 27%] Built target test-read-write-cursor make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download/CMakeFiles/test-download.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 27%] Building C object tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -MF CMakeFiles/test-download.dir/test-download.c.o.d -o CMakeFiles/test-download.dir/test-download.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download/test-download.c [ 27%] Linking C executable ../../../bin/crc32sum [ 27%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/FragmentIterator.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cmake -E cmake_link_script CMakeFiles/crc32sum.dir/link.txt --verbose=1 [ 27%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -MF CMakeFiles/vdb-copy.dir/helper.c.o.d -o CMakeFiles/vdb-copy.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/helper.c [ 27%] Linking C executable ../../../bin/meta-repair cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-repair.dir/link.txt --verbose=1 [ 27%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c [ 27%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadItf.cpp [ 27%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o -MF CMakeFiles/vdb-diff.dir/coldefs.c.o.d -o CMakeFiles/vdb-diff.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/coldefs.c [ 27%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -MF CMakeFiles/copycat.dir/ccsubchunk.c.o.d -o CMakeFiles/copycat.dir/ccsubchunk.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsubchunk.c [ 27%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_FragmentItf.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/crc32sum.dir/link.d CMakeFiles/crc32sum.dir/crc32sum.c.o -o ../../../bin/crc32sum /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f crc32sum.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-repair.dir/link.d "CMakeFiles/meta-repair.dir/meta-repair.c.o" -o ../../../bin/meta-repair /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-repair.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv crc32sum crc32sum.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-repair meta-repair.3.0.9 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-checklookup.dir/link.d "CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o" -o ../../../../../test-bin/idx-text-checklookup /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3.0.9 crc32sum.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3.0.9 meta-repair.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3 crc32sum cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3 meta-repair [ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -MF CMakeFiles/ngs.dir/NGS_Statistics.c.o.d -o CMakeFiles/ngs.dir/NGS_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Statistics.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 27%] Built target idx-text-checklookup make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/depend [ 27%] Built target crc32sum [ 27%] Built target meta-repair make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/DependInfo.cmake "--color=" make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/DependInfo.cmake "--color=" [ 28%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o [ 28%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_StatisticsItf.cpp [ 28%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 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make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build [ 29%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff-context.c [ 29%] Linking C executable ../../../bin/read-filter-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/read-filter-redact.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 29%] Building C object tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o -MF CMakeFiles/kdb-index.dir/kdb-index.c.o.d -o CMakeFiles/kdb-index.dir/kdb-index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index/kdb-index.c [ 29%] Building C object tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -MF CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o.d -o CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct/pacbio-correct.c [ 29%] Linking C executable ../../../bin/check-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-redact.dir/link.txt --verbose=1 [ 29%] Linking C executable ../../../bin/test-download cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-download.dir/link.txt --verbose=1 [ 29%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -MF CMakeFiles/copycat.dir/ccfile.c.o.d -o CMakeFiles/copycat.dir/ccfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfile.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/read-filter-redact.dir/link.d "CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o" -o ../../../bin/read-filter-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f read-filter-redact.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv read-filter-redact read-filter-redact.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3.0.9 read-filter-redact.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3 read-filter-redact [ 30%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -MF CMakeFiles/ngs.dir/NGS_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReadCollection.c [ 30%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -MF CMakeFiles/vdb-diff.dir/cmn.c.o.d -o CMakeFiles/vdb-diff.dir/cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/cmn.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-redact.dir/link.d "CMakeFiles/check-redact.dir/check-redact.c.o" -o ../../../bin/check-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-redact.3.0.9 [ 30%] Linking C executable ../../../bin/pacbio-correct [ 30%] Built target read-filter-redact make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-correct.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-redact check-redact.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-download.dir/link.d "CMakeFiles/test-download.dir/test-download.c.o" -o ../../../bin/test-download /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-download.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-download test-download.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3.0.9 check-redact.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3.0.9 test-download.3 [ 31%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3 check-redact cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/db-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3 test-download make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 31%] Built target check-redact [ 31%] Linking C executable ../../../bin/kdb-index cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdb-index.dir/link.txt --verbose=1 make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/DependInfo.cmake "--color=" [ 31%] Building C object tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -MF CMakeFiles/schema-replace.dir/schema-replace.c.o.d -o CMakeFiles/schema-replace.dir/schema-replace.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace/schema-replace.c [ 31%] Built target test-download make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/DependInfo.cmake "--color=" [ 31%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StringItf.cpp make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 31%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -MF CMakeFiles/copycat.dir/kff/fileformat.c.o.d -o CMakeFiles/copycat.dir/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c [ 31%] Building C object tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o -MF CMakeFiles/sortreadtest.dir/sortreadtest.c.o.d -o CMakeFiles/sortreadtest.dir/sortreadtest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest/sortreadtest.c [ 31%] Building C object tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o -MF CMakeFiles/rowwritetest.dir/rowwritetest.c.o.d -o CMakeFiles/rowwritetest.dir/rowwritetest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest/rowwritetest.c [ 31%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Fragment.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-correct.dir/link.d "CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o" -o ../../../bin/pacbio-correct /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-correct.3.0.9 [ 31%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-correct pacbio-correct.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Package.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3.0.9 pacbio-correct.3 [ 31%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3 pacbio-correct make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 31%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -MF CMakeFiles/vdb-diff.dir/row_by_row.c.o.d -o CMakeFiles/vdb-diff.dir/row_by_row.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/row_by_row.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdb-index.dir/link.d "CMakeFiles/kdb-index.dir/kdb-index.c.o" -o ../../../bin/kdb-index /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdb-index.3.0.9 [ 31%] Built target pacbio-correct cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdb-index kdb-index.3.0.9 [ 31%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o -MF CMakeFiles/vdb-copy.dir/coldefs.c.o.d -o CMakeFiles/vdb-copy.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/coldefs.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util/CMakeFiles/samview-util.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3.0.9 kdb-index.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3 kdb-index make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 31%] Built target kdb-index make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld 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-MD -MT tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -MF CMakeFiles/samview-util.dir/samview.c.o.d -o CMakeFiles/samview-util.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util/samview.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 32%] Building C object tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -MF CMakeFiles/testld.dir/testld.c.o.d -o CMakeFiles/testld.dir/testld.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld/testld.c [ 32%] Linking C executable ../../../bin/schema-replace cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cmake -E cmake_link_script CMakeFiles/schema-replace.dir/link.txt --verbose=1 [ 33%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceIteratorItf.cpp [ 33%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o [ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o -MF CMakeFiles/copycat.dir/kff/ffext.c.o.d -o CMakeFiles/copycat.dir/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_String.cpp [ 34%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Refcount.cpp [ 34%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -MF CMakeFiles/vdb-diff.dir/col_by_col.c.o.d -o CMakeFiles/vdb-diff.dir/col_by_col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/col_by_col.c [ 34%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c [ 34%] Linking C executable ../../../bin/sortreadtest [ 34%] Linking C executable ../../../bin/samview-util cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview-util.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/sortreadtest.dir/link.txt --verbose=1 [ 35%] Linking C executable ../../../bin/rowwritetest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cmake -E cmake_link_script CMakeFiles/rowwritetest.dir/link.txt --verbose=1 [ 35%] Linking C executable ../../../bin/testld cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cmake -E cmake_link_script CMakeFiles/testld.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/schema-replace.dir/link.d "CMakeFiles/schema-replace.dir/schema-replace.c.o" -o ../../../bin/schema-replace /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f schema-replace.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv schema-replace schema-replace.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3.0.9 schema-replace.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3 schema-replace make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 35%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o -MF CMakeFiles/ngs-disp.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-disp.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/Refcount.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rowwritetest.dir/link.d CMakeFiles/rowwritetest.dir/rowwritetest.c.o -o ../../../bin/rowwritetest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rowwritetest.3.0.9 [ 35%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o [ 35%] Built target schema-replace cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -MF CMakeFiles/ngs.dir/NGS_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_PileupEvent.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rowwritetest rowwritetest.3.0.9 make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3.0.9 rowwritetest.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3 rowwritetest [ 35%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview-util.dir/link.d "CMakeFiles/samview-util.dir/samview.c.o" -o ../../../bin/samview-util /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview-util.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sortreadtest.dir/link.d CMakeFiles/sortreadtest.dir/sortreadtest.c.o -o ../../../bin/sortreadtest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testld.dir/link.d CMakeFiles/testld.dir/testld.c.o -o ../../../bin/testld /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sortreadtest.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f testld.3.0.9 [ 35%] Built target rowwritetest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview-util samview-util.3.0.9 make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sortreadtest sortreadtest.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3.0.9 samview-util.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv testld testld.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3 samview-util make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3.0.9 testld.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3 testld make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 36%] Built target samview-util make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 36%] Building C object tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o -MF CMakeFiles/txt2kdb.dir/txt2kdb.c.o.d -o CMakeFiles/txt2kdb.dir/txt2kdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb/txt2kdb.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3.0.9 sortreadtest.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build.make tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/depend [ 36%] Built target testld make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3 sortreadtest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 36%] Building CXX object tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT 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test/vdb/CMakeFiles/test-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb/CMakeFiles/test-vdb.dir/DependInfo.cmake "--color=" [ 36%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o -MF CMakeFiles/sra-sort.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c [ 36%] Building CXX object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o [ 36%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o -MF CMakeFiles/qa-stats.dir/main.cpp.o.d -o CMakeFiles/qa-stats.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o -MF CMakeFiles/sam-analyze.dir/main.cpp.o.d -o CMakeFiles/sam-analyze.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/main.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 36%] Building CXX object test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o -MF CMakeFiles/test-vdb.dir/test-vdb.cpp.o.d -o CMakeFiles/test-vdb.dir/test-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb/test-vdb.cpp [ 37%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -MF CMakeFiles/copycat.dir/kff/ffkey.c.o.d -o CMakeFiles/copycat.dir/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c [ 37%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ErrorMsg.cpp [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c [ 37%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Statistics.cpp [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c [ 37%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -MF CMakeFiles/vdb-copy.dir/get_platform.c.o.d -o CMakeFiles/vdb-copy.dir/get_platform.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/get_platform.c [ 37%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceSequenceItf.cpp [ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o -MF CMakeFiles/ngs.dir/NGS_Pileup.c.o.d -o CMakeFiles/ngs.dir/NGS_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Pileup.c [ 37%] Linking C executable ../../../bin/txt2kdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/txt2kdb.dir/link.txt --verbose=1 [ 37%] Linking CXX static library ../../../../ilib/libngs-bind-java.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -P CMakeFiles/ngs-bind-java.dir/cmake_clean_target.cmake [ 37%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o -MF CMakeFiles/ngs-disp.dir/VTable.cpp.o.d -o CMakeFiles/ngs-disp.dir/VTable.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/VTable.cpp [ 37%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o -MF CMakeFiles/vdb-copy.dir/copy_meta.c.o.d -o CMakeFiles/vdb-copy.dir/copy_meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-java.dir/link.txt --verbose=1 [ 37%] Linking C executable ../../../bin/vdb-diff cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-diff.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c:301:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 301 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ /usr/bin/ar qc ../../../../ilib/libngs-bind-java.a "CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-java.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -MF CMakeFiles/sra-sort-cg.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c [ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o -MF CMakeFiles/ngs.dir/NGS_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReadGroup.c [ 37%] Built target ngs-bind-java make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/depend /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/txt2kdb.dir/link.d CMakeFiles/txt2kdb.dir/txt2kdb.c.o -o ../../../bin/txt2kdb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f txt2kdb.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv txt2kdb txt2kdb.3.0.9 [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3.0.9 txt2kdb.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3 txt2kdb /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-diff.dir/link.d "CMakeFiles/vdb-diff.dir/namelist_tools.c.o" "CMakeFiles/vdb-diff.dir/coldefs.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o" "CMakeFiles/vdb-diff.dir/cmn.c.o" "CMakeFiles/vdb-diff.dir/row_by_row.c.o" "CMakeFiles/vdb-diff.dir/col_by_col.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff.c.o" -o ../../../bin/vdb-diff /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-diff.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-diff vdb-diff.3.0.9 make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3.0.9 vdb-diff.3 [ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -MF CMakeFiles/ngs.dir/NGS_Alignment.c.o.d -o CMakeFiles/ngs.dir/NGS_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Alignment.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3 vdb-diff [ 37%] Built target txt2kdb make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/DependInfo.cmake "--color=" [ 37%] Building Java objects for test-ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS [ 37%] Built target vdb-diff make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build [ 37%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -MF CMakeFiles/copycat.dir/kff/ffmagic.c.o.d -o CMakeFiles/copycat.dir/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_sources make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 37%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o [ 37%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o [ 37%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/StringRef.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -MF CMakeFiles/vdb-copy.dir/type_matcher.c.o.d -o CMakeFiles/vdb-copy.dir/type_matcher.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/type_matcher.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -MF CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-build-version.cpp [ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -MF CMakeFiles/ngs.dir/NGS_Reference.c.o.d -o CMakeFiles/ngs.dir/NGS_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Reference.c [ 37%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -MF CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o.d -o CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-filepath.cpp [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c [ 37%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StatisticsItf.cpp [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c [ 37%] Linking C executable ../../../bin/copycat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/copycat.dir/link.txt --verbose=1 [ 37%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ErrBlock.cpp [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c [ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -MF CMakeFiles/sra-sort.dir/run.c.o.d -o CMakeFiles/sra-sort.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c [ 38%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/copycat.dir/link.d CMakeFiles/copycat.dir/copycat.c.o CMakeFiles/copycat.dir/ccfileformat.c.o CMakeFiles/copycat.dir/cccat.c.o CMakeFiles/copycat.dir/cctree.c.o "CMakeFiles/copycat.dir/cctree-dump.c.o" CMakeFiles/copycat.dir/cctar.c.o CMakeFiles/copycat.dir/ccsra.c.o CMakeFiles/copycat.dir/ccsubchunk.c.o CMakeFiles/copycat.dir/ccfile.c.o CMakeFiles/copycat.dir/kff/fileformat.c.o CMakeFiles/copycat.dir/kff/ffext.c.o CMakeFiles/copycat.dir/kff/ffkey.c.o CMakeFiles/copycat.dir/kff/ffmagic.c.o -o ../../../bin/copycat /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libmagic.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f copycat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o -MF CMakeFiles/vdb-copy.dir/redactval.c.o.d -o CMakeFiles/vdb-copy.dir/redactval.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/redactval.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv copycat copycat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3.0.9 copycat.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3 copycat make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 38%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function 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-I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -MF CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-command-line.cpp [ 39%] Linking CXX static library ../../../../ilib/libngs-bind-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -P CMakeFiles/ngs-bind-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-c++.dir/link.txt --verbose=1 [ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c [ 40%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o -MF CMakeFiles/vdb-copy.dir/config_values.c.o.d -o CMakeFiles/vdb-copy.dir/config_values.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/config_values.c [ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceSequence.c [ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -MF CMakeFiles/sra-sort.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c [ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o /usr/bin/ar qc ../../../../ilib/libngs-bind-c++.a "CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-c++.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o -MF CMakeFiles/ngs.dir/NGS_Read.c.o.d -o CMakeFiles/ngs.dir/NGS_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Read.c [ 40%] Built target ngs-bind-c++ make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/DependInfo.cmake "--color=" [ 40%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ErrorMsg.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 40%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -MF CMakeFiles/vdb-copy.dir/vdb-copy.c.o.d -o CMakeFiles/vdb-copy.dir/vdb-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.c [ 40%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 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Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 40%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o [ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StringItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c [ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o -MF CMakeFiles/ngs.dir/NGS_Fragment.c.o.d -o CMakeFiles/ngs.dir/NGS_Fragment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Fragment.c [ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c [ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c [ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o -MF CMakeFiles/ngs.dir/NGS_Refcount.c.o.d -o CMakeFiles/ngs.dir/NGS_Refcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Refcount.c [ 41%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o -MF CMakeFiles/ngs.dir/NGS_Cursor.c.o.d -o CMakeFiles/ngs.dir/NGS_Cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Cursor.c [ 41%] Linking C executable ../../../bin/sra-sort-cg cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort-cg.dir/link.txt --verbose=1 [ 41%] Linking CXX executable ../../../test-bin/Test_Drivertool_BuildVersion cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_BuildVersion.dir/link.txt --verbose=1 [ 41%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o [ 41%] Linking C executable ../../../bin/vdb-copy cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-copy.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -MF CMakeFiles/ngs.dir/NGS_String.c.o.d -o CMakeFiles/ngs.dir/NGS_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_String.c [ 41%] Linking CXX static library ../../../../ilib/libngs-bind-python.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -P CMakeFiles/ngs-bind-python.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-python.dir/link.txt --verbose=1 [ 42%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o -MF CMakeFiles/sra-sort.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c [ 42%] Linking CXX static library ../../../ilib/libngs-disp.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -P CMakeFiles/ngs-disp.dir/cmake_clean_target.cmake /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort-cg.dir/link.d "CMakeFiles/sra-sort-cg.dir/caps.c.o" "CMakeFiles/sra-sort-cg.dir/mem.c.o" "CMakeFiles/sra-sort-cg.dir/membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort-cg.dir/except.c.o" "CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o" "CMakeFiles/sra-sort-cg.dir/map-file.c.o" "CMakeFiles/sra-sort-cg.dir/col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/row-set.c.o" "CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/meta-pair.c.o" "CMakeFiles/sra-sort-cg.dir/dir-pair.c.o" "CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o" "CMakeFiles/sra-sort-cg.dir/db-pair.c.o" "CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o" "CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort-cg.dir/buff-writer.c.o" "CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort-cg.dir/run.c.o" "CMakeFiles/sra-sort-cg.dir/sra-sort.c.o" "CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o" "CMakeFiles/sra-sort-cg.dir/csra-pair.c.o" -o ../../../bin/sra-sort-cg /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort-cg.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort-cg sra-sort-cg.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3.0.9 sra-sort-cg.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3 sra-sort-cg [ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o -MF CMakeFiles/ngs.dir/NGS_Id.c.o.d -o CMakeFiles/ngs.dir/NGS_Id.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Id.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-disp.dir/link.txt --verbose=1 [ 42%] Built target sra-sort-cg make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-copy.dir/link.d "CMakeFiles/vdb-copy.dir/context.c.o" "CMakeFiles/vdb-copy.dir/helper.c.o" "CMakeFiles/vdb-copy.dir/coldefs.c.o" "CMakeFiles/vdb-copy.dir/get_platform.c.o" "CMakeFiles/vdb-copy.dir/copy_meta.c.o" "CMakeFiles/vdb-copy.dir/type_matcher.c.o" "CMakeFiles/vdb-copy.dir/redactval.c.o" "CMakeFiles/vdb-copy.dir/config_values.c.o" "CMakeFiles/vdb-copy.dir/vdb-copy.c.o" -o ../../../bin/vdb-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm /usr/bin/ar qc ../../../../ilib/libngs-bind-python.a "CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" /usr/bin/ranlib ../../../../ilib/libngs-bind-python.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-copy vdb-copy.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3.0.9 vdb-copy.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3 vdb-copy make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/vdb-copy.kfg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 42%] Built target ngs-bind-python make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/DependInfo.cmake "--color=" [ 42%] Linking C executable ../../../bin/sra-sort cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_BuildVersion.dir/link.d "CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o" -o ../../../test-bin/Test_Drivertool_BuildVersion /usr/bin/ar qc ../../../ilib/libngs-disp.a "CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "CMakeFiles/ngs-disp.dir/VTable.cpp.o" "CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" /usr/bin/ranlib ../../../ilib/libngs-disp.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -MF CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o.d -o CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-sdl-response.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build [ 42%] Built target vdb-copy make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/DependInfo.cmake "--color=" [ 42%] Built target Test_Drivertool_BuildVersion [ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -MF CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o.d -o CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp [ 42%] Built target ngs-disp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/DependInfo.cmake "--color=" make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/DependInfo.cmake "--color=" [ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -MF CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o.d -o CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-uuid.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -MF CMakeFiles/ngs.dir/NGS_ErrBlock.c.o.d -o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ErrBlock.c [ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp [ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o [ 42%] Building CXX object test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -MF CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o.d -o CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch/test-quality.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlob.c [ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-tool-args.cpp [ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlobIterator.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort.dir/link.d "CMakeFiles/sra-sort.dir/caps.c.o" "CMakeFiles/sra-sort.dir/mem.c.o" "CMakeFiles/sra-sort.dir/membank.c.o" "CMakeFiles/sra-sort.dir/paged-membank.c.o" "CMakeFiles/sra-sort.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort.dir/except.c.o" "CMakeFiles/sra-sort.dir/idx-mapping.c.o" "CMakeFiles/sra-sort.dir/map-file.c.o" "CMakeFiles/sra-sort.dir/col-pair.c.o" "CMakeFiles/sra-sort.dir/row-set.c.o" "CMakeFiles/sra-sort.dir/simple-row-set.c.o" "CMakeFiles/sra-sort.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort.dir/meta-pair.c.o" "CMakeFiles/sra-sort.dir/dir-pair.c.o" "CMakeFiles/sra-sort.dir/tbl-pair.c.o" "CMakeFiles/sra-sort.dir/db-pair.c.o" "CMakeFiles/sra-sort.dir/glob-poslen.c.o" "CMakeFiles/sra-sort.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort.dir/buff-writer.c.o" "CMakeFiles/sra-sort.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort.dir/run.c.o" "CMakeFiles/sra-sort.dir/sra-sort.c.o" "CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort.dir/csra-tbl.c.o" "CMakeFiles/sra-sort.dir/csra-pair.c.o" -o ../../../bin/sra-sort /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort sra-sort.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3.0.9 sra-sort.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3 sra-sort make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 42%] Built target sra-sort make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build [ 43%] Linking CXX executable ../../../test-bin/SlowTest_Prefetch make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Prefetch.dir/link.txt --verbose=1 [ 43%] Building CXX object test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -MF CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o.d -o CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat/testAssemblyStatistics.cpp [ 43%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlob.c [ 43%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlobIterator.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Prefetch.dir/link.d "CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o" -o ../../../test-bin/SlowTest_Prefetch /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 43%] Built target SlowTest_Prefetch make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 43%] Building CXX object test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -MF CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o.d -o CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config-model.cpp In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp:38: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 44%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -MF CMakeFiles/ngs.dir/VByteBlob.c.o.d -o CMakeFiles/ngs.dir/VByteBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/VByteBlob.c [ 44%] Building C object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o -MF CMakeFiles/sam-analyze.dir/sqlite3.c.o.d -o CMakeFiles/sam-analyze.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/sqlite3.c [ 44%] Linking C static library ../../../ilib/libngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -P CMakeFiles/ngs.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../ilib/libngs.a "CMakeFiles/ngs.dir/NCBI-NGS.c.o" CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o CMakeFiles/ngs.dir/CSRA1_Reference.c.o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o CMakeFiles/ngs.dir/CSRA1_Read.c.o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o CMakeFiles/ngs.dir/SRA_Statistics.c.o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_Read.c.o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Statistics.c.o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o CMakeFiles/ngs.dir/NGS_Pileup.c.o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o CMakeFiles/ngs.dir/NGS_Alignment.c.o CMakeFiles/ngs.dir/NGS_Reference.c.o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Read.c.o CMakeFiles/ngs.dir/NGS_Fragment.c.o CMakeFiles/ngs.dir/NGS_Cursor.c.o CMakeFiles/ngs.dir/NGS_Refcount.c.o CMakeFiles/ngs.dir/NGS_String.c.o CMakeFiles/ngs.dir/NGS_Id.c.o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o CMakeFiles/ngs.dir/VByteBlob.c.o /usr/bin/ranlib ../../../ilib/libngs.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target ngs make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/DependInfo.cmake "--color=" Note: ngs_test_lib_load.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.cpp:36, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp:39: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_compiled_test-ngs-java [ 44%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-spec.cpp [ 44%] Generating CMakeFiles/test-ngs-java.dir/java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake [ 45%] Creating Java archive test-ngs-java.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar @java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=test-ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 45%] Built target test-ngs-java make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 45%] Linking CXX executable ../../../test-bin/Test_Drivertool_CommandLine cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_CommandLine.dir/link.txt --verbose=1 [ 45%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-alias.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_CommandLine.dir/link.d "CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o" -o ../../../test-bin/Test_Drivertool_CommandLine make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 45%] Built target Test_Drivertool_CommandLine make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 45%] Building CXX object test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -MF CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o.d -o CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate/test-vdb-validate.cpp [ 45%] Linking CXX executable ../../../bin/sra-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-info.dir/link.txt --verbose=1 [ 45%] Linking CXX executable ../../../test-bin/Test_Drivertool_Accession cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_Accession.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_Accession.dir/link.d "CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o" -o ../../../test-bin/Test_Drivertool_Accession make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 45%] Built target Test_Drivertool_Accession make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Building CXX object test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -MF CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o.d -o CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/test-sra-info.cpp [ 46%] Linking CXX executable ../../../test-bin/Test_Drivertool_UUID cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_UUID.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-info.dir/link.d "CMakeFiles/sra-info.dir/main.cpp.o" "CMakeFiles/sra-info.dir/sra-info.cpp.o" "CMakeFiles/sra-info.dir/formatter.cpp.o" -o ../../../bin/sra-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-info sra-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3.0.9 sra-info.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3 sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target sra-info make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/DependInfo.cmake "--color=" [ 46%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-alias cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-alias.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Building CXX object test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -MF CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o.d -o CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load/sam-platform.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_UUID.dir/link.d "CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o" -o ../../../test-bin/Test_Drivertool_UUID make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target Test_Drivertool_UUID make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-alias.dir/link.d "CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o" -o ../../../test-bin/Test_Vdb_dump_view-alias /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Building C object test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o [ 46%] Linking CXX executable ../../../test-bin/testAssemblyStatistics cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAssemblyStatistics.dir/link.txt --verbose=1 [ 46%] Built target Test_Vdb_dump_view-alias cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -MF CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o.d -o CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/qfiletest.c make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -MF CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o.d -o CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/test-loaderfile.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testAssemblyStatistics.dir/link.d CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -o ../../../test-bin/testAssemblyStatistics /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target testAssemblyStatistics make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADER.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -MF CMakeFiles/Test_LOADER.dir/loadertest.cpp.o.d -o CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp [ 46%] Linking CXX executable ../../../test-bin/Test_BamLoader_platform cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_BamLoader_platform.dir/link.txt --verbose=1 [ 46%] Linking C executable ../../../test-bin/Test_KAPP_qfile cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KAPP_qfile.dir/link.txt --verbose=1 [ 46%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -MF CMakeFiles/sratools.dir/proc.cpp.o.d -o CMakeFiles/sratools.dir/proc.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_BamLoader_platform.dir/link.d "CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o" -o ../../../test-bin/Test_BamLoader_platform make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target Test_BamLoader_platform make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/Test_Align_samextract.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:307:117: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 307 | REQUIRE_RC ( KLoaderMeta_Write ( node, LoaderName.c_str(), __DATE__, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:321:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 321 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:350:143: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 350 | REQUIRE_RC ( KLoaderMeta_WriteWithVersion ( node, LoaderName.c_str(), __DATE__, LoaderVersion, FormatterName.c_str(), KAppVersion() ) ); | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:364:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 364 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ [ 46%] Building CXX object test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -MF CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o.d -o CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/test-samextract.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KAPP_qfile.dir/link.d CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -o ../../../test-bin/Test_KAPP_qfile ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target Test_KAPP_qfile make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Build-copycat.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/copycat/CMakeFiles/Build-copycat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target Build-copycat make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Test_KFF.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 46%] Building CXX object test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o -MF CMakeFiles/Test_KFF.dir/kfftest.cpp.o.d -o CMakeFiles/Test_KFF.dir/kfftest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/kfftest.cpp [ 47%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void printEnvironment(bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void testing_5()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 47%] Linking CXX executable ../../../test-bin/Test_LOADERFILE cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADERFILE.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADERFILE.dir/link.d "CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o" -o ../../../test-bin/Test_LOADERFILE ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target Test_LOADERFILE make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target Build-read-filter-redact make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target Build-vdb-copy make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target Build-vdb-diff make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Building CXX object ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-c++\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -MF CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o.d -o CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++/NCBI-NGS.cpp [ 47%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o [ 47%] Linking CXX executable ../../../test-bin/Test_VdbValidate_Unit cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VdbValidate_Unit.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o -MF CMakeFiles/sratools.dir/uuid.cpp.o.d -o CMakeFiles/sratools.dir/uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/uuid.cpp [ 47%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -MF CMakeFiles/qa-stats.dir/input.cpp.o.d -o CMakeFiles/qa-stats.dir/input.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/input.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_VdbValidate_Unit.dir/link.d "CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o" -o ../../../test-bin/Test_VdbValidate_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o [ 47%] Built target Test_VdbValidate_Unit cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-doc.jar\ . [ 47%] Linking CXX executable ../../../test-bin/Test_Drivertool_JsonParsing cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_JsonParsing.dir/link.txt --verbose=1 [ 47%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o -MF CMakeFiles/sratools.dir/accession.cpp.o.d -o CMakeFiles/sratools.dir/accession.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp [ 47%] Linking CXX static library ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -P CMakeFiles/ncbi-ngs-c++.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-c++.dir/link.txt --verbose=1 [ 47%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c /usr/bin/ar qc ../../../lib/libncbi-ngs-c++.a "CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" /usr/bin/ranlib ../../../lib/libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs-c++.a libncbi-ngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3.0.9 libncbi-ngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3 libncbi-ngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a libncbi-ngs-c++-static.a /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_JsonParsing.dir/link.d "CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o" -o ../../../test-bin/Test_Drivertool_JsonParsing make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 47%] Built target Test_Drivertool_JsonParsing make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/depend [ 47%] Linking CXX executable ../../../bin/sam-factory make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/DependInfo.cmake "--color=" [ 47%] Built target ncbi-ngs-c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-factory.dir/link.txt --verbose=1 make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-src.jar\ \ ngs/ErrorMsg.java\ ngs/Statistics.java\ ngs/Fragment.java\ ngs/FragmentIterator.java\ ngs/Read.java\ ngs/ReadIterator.java\ ngs/ReadGroup.java\ ngs/ReadGroupIterator.java\ ngs/Alignment.java\ ngs/AlignmentIterator.java\ ngs/PileupEvent.java\ ngs/PileupEventIterator.java\ ngs/Pileup.java\ ngs/PileupIterator.java\ ngs/Reference.java\ ngs/ReferenceIterator.java\ ngs/ReadCollection.java\ ngs/Package.java\ ngs/itf/Refcount.java\ ngs/itf/StatisticsItf.java\ ngs/itf/FragmentItf.java\ ngs/itf/FragmentIteratorItf.java\ ngs/itf/ReadItf.java\ ngs/itf/ReadIteratorItf.java\ ngs/itf/ReadGroupItf.java\ ngs/itf/ReadGroupIteratorItf.java\ ngs/itf/AlignmentItf.java\ ngs/itf/AlignmentIteratorItf.java\ ngs/itf/PileupEventItf.java\ ngs/itf/PileupEventIteratorItf.java\ ngs/itf/PileupItf.java\ ngs/itf/PileupIteratorItf.java\ ngs/itf/ReferenceItf.java\ ngs/itf/ReferenceIteratorItf.java\ ngs/itf/ReadCollectionItf.java\ gov/nih/nlm/ncbi/ngs/DownloadManager.java\ gov/nih/nlm/ncbi/ngs/FileCreator.java\ gov/nih/nlm/ncbi/ngs/HttpManager.java\ gov/nih/nlm/ncbi/ngs/LibDependencies.java\ gov/nih/nlm/ncbi/ngs/LibManager.java\ gov/nih/nlm/ncbi/ngs/LibPathIterator.java\ gov/nih/nlm/ncbi/ngs/LibVersionChecker.java\ gov/nih/nlm/ncbi/ngs/LMProperties.java\ gov/nih/nlm/ncbi/ngs/Logger.java\ gov/nih/nlm/ncbi/ngs/Manager.java\ gov/nih/nlm/ncbi/ngs/NGS.java\ gov/nih/nlm/ncbi/ngs/Version.java\ gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java\ gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 48%] Building Java objects for ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_sources [ 48%] Built target ngs-doc-jar make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/DependInfo.cmake "--color=" [ 49%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp [ 49%] Building CXX object libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -MF CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o.d -o CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_makedb.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-factory.dir/link.d "CMakeFiles/sam-factory.dir/sam-factory.cpp.o" -o ../../../bin/sam-factory /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Built target sam-factory make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/gw-dumper.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building CXX object libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -MF CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o.d -o CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/gw-dumper.cpp [ 49%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Built target ngs-src-jar make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test/CMakeFiles/test-general-writer.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building CXX object libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -MF CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o.d -o CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp:36: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 49%] Linking CXX executable ../../../test-bin/Test_KFF cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFF.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KFF.dir/link.d CMakeFiles/Test_KFF.dir/kfftest.cpp.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -o ../../../test-bin/Test_KFF /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmagic make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Built target Test_KFF make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch/CMakeFiles/prefetch.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 49%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o -MF CMakeFiles/prefetch.dir/kfile-no-q.c.o.d -o CMakeFiles/prefetch.dir/kfile-no-q.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/kfile-no-q.c [ 50%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -MF CMakeFiles/prefetch.dir/PrfMain.c.o.d -o CMakeFiles/prefetch.dir/PrfMain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfMain.c [ 50%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o -MF CMakeFiles/sratools.dir/service.cpp.o.d -o CMakeFiles/sratools.dir/service.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/service.cpp [ 50%] Linking CXX executable ../../../test-bin/Test_Drivertool_FilePath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_FilePath.dir/link.txt --verbose=1 [ 50%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c [ 50%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_FilePath.dir/link.d "CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o" -o ../../../test-bin/Test_Drivertool_FilePath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp: In function 'void ncbi::runTest(int, const char**, const char*, const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:271:20: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] 271 | delete gw; | ^~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:217:24: note: 'gw' was declared here 217 | GeneralWriter *gw; | ^~ [ 50%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o -MF CMakeFiles/prefetch.dir/prefetch.c.o.d -o CMakeFiles/prefetch.dir/prefetch.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/prefetch.c [ 50%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o [ 50%] Built target Test_Drivertool_FilePath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c [ 51%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c [ 52%] Linking CXX executable ../../../test-bin/ngs-makedb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-makedb.dir/link.txt --verbose=1 [ 52%] Linking CXX executable ../../../test-bin/Test_LOADER cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADER.dir/link.txt --verbose=1 [ 52%] Linking CXX executable ../../../test-bin/test-general-writer cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-writer.dir/link.txt --verbose=1 [ 52%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c [ 52%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c [ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp [ 52%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o -MF CMakeFiles/sratools.dir/json-parse.cpp.o.d -o CMakeFiles/sratools.dir/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/json-parse.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-makedb.dir/link.d "CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o" -o ../../../test-bin/ngs-makedb -Wl,-Bstatic -lktst -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADER.dir/link.d CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -o ../../../test-bin/Test_LOADER ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_compiled_ngs-examples [ 52%] Linking CXX executable ../../../test-bin/Test_Align_samextract cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Align_samextract.dir/link.txt --verbose=1 [ 52%] Built target ngs-makedb /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-writer.dir/link.d "CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o" -o ../../../test-bin/test-general-writer ../../../ilib/libgeneral-writer.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/depend [ 52%] Built target Test_LOADER make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/CMakeFiles/vdb-config.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Generating CMakeFiles/ngs-examples.dir/java_class_filelist make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/fastq-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/build [ 52%] Built target test-general-writer make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/sff-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o [ 52%] Creating Java archive ngs-examples.jar cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-examples.jar @java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/illumina-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o -MF CMakeFiles/illumina-dump.dir/factory.c.o.d -o 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object tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o -MF CMakeFiles/abi-dump.dir/factory.c.o.d -o 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -MF CMakeFiles/fastq-dump.dir/fastq.c.o.d -o CMakeFiles/fastq-dump.dir/fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fastq.c [ 52%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o -MF CMakeFiles/sff-dump.dir/core.c.o.d -o CMakeFiles/sff-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 52%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-spec cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-spec.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/fasta_dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/fasta_dump.c.o -MF CMakeFiles/illumina-dump.dir/fasta_dump.c.o.d -o CMakeFiles/illumina-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-spec.dir/link.d "CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o" -o ../../../test-bin/Test_Vdb_dump_view-spec /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Linking CXX executable ../../../test-bin/Test_Drivertool_ToolArgs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_ToolArgs.dir/link.txt --verbose=1 [ 52%] Built target Test_Vdb_dump_view-spec [ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/core.c.o -MF CMakeFiles/illumina-dump.dir/core.c.o.d -o CMakeFiles/illumina-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o -MF CMakeFiles/abi-dump.dir/fasta_dump.c.o.d -o CMakeFiles/abi-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 52%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o -MF CMakeFiles/sff-dump.dir/sff.c.o.d -o CMakeFiles/sff-dump.dir/sff.c.o -c 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../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/illumina.c.o -MF CMakeFiles/illumina-dump.dir/illumina.c.o.d -o CMakeFiles/illumina-dump.dir/illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/illumina.c [ 52%] Built target Test_Drivertool_ToolArgs make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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-E cmake_link_script CMakeFiles/gw-dumper.dir/link.txt --verbose=1 [ 53%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o [ 53%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o -MF CMakeFiles/abi-dump.dir/core.c.o.d -o CMakeFiles/abi-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c [ 53%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp [ 54%] Linking CXX executable ../../../test-bin/test-vdb-config-model cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb-config-model.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1011 | ReportBuildDate ( __DATE__ ); | ^~~~~~~~ [ 54%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o -MF CMakeFiles/vdb-config.dir/util.cpp.o.d -o CMakeFiles/vdb-config.dir/util.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/util.cpp [ 54%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o -MF CMakeFiles/sratools.dir/build-version.cpp.o.d -o CMakeFiles/sratools.dir/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp [ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -MF CMakeFiles/sra-pileup.dir/out_redir.c.o.d -o CMakeFiles/sra-pileup.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/gw-dumper.dir/link.d "CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o" -o ../../bin/gw-dumper ../../ilib/libgeneral-writer.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb-config-model.dir/link.d "CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o" -o ../../../test-bin/test-vdb-config-model /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 54%] Built target test-vdb-config-model [ 54%] Built target gw-dumper make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup/CMakeFiles/sam-dump.dir/DependInfo.cmake "--color=" [ 54%] Building C object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/inputfiles.c [ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o -MF CMakeFiles/sra-pileup.dir/perf_log.c.o.d -o CMakeFiles/sra-pileup.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' 82 | for (auto ext : make_sequence(&extensions[1], 3)) { | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 54%] Linking C executable ../../../bin/sff-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-dump.dir/link.txt --verbose=1 [ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o -MF CMakeFiles/sra-pileup.dir/reref.c.o.d -o CMakeFiles/sra-pileup.dir/reref.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/reref.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-dump.dir/link.d "CMakeFiles/sff-dump.dir/factory.c.o" "CMakeFiles/sff-dump.dir/fasta_dump.c.o" "CMakeFiles/sff-dump.dir/core.c.o" "CMakeFiles/sff-dump.dir/sff.c.o" -o ../../../bin/sff-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-dump.3.0.9 [ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o -MF CMakeFiles/sam-dump.dir/perf_log.c.o.d -o CMakeFiles/sam-dump.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-dump sff-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3.0.9 sff-dump.3 [ 54%] Linking C executable ../../../bin/illumina-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3 sff-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 54%] Built target sff-dump make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/DependInfo.cmake "--color=" [ 54%] Linking C executable ../../../bin/fastq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-dump.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb.dir/link.d "CMakeFiles/test-vdb.dir/test-vdb.cpp.o" -o ../../test-bin/test-vdb -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 54%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -MF CMakeFiles/fasterq-dump.dir/helper.c.o.d -o CMakeFiles/fasterq-dump.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/helper.c [ 54%] Built target test-vdb make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/DependInfo.cmake "--color=" [ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o -MF CMakeFiles/sra-pileup.dir/cg_tools.c.o.d -o CMakeFiles/sra-pileup.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-dump.dir/link.d "CMakeFiles/illumina-dump.dir/factory.c.o" "CMakeFiles/illumina-dump.dir/fasta_dump.c.o" "CMakeFiles/illumina-dump.dir/core.c.o" "CMakeFiles/illumina-dump.dir/illumina.c.o" -o ../../../bin/illumina-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-dump illumina-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3.0.9 illumina-dump.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3 illumina-dump make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 54%] Built target illumina-dump [ 54%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/depend [ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -MF CMakeFiles/sam-dump.dir/rna_splice_log.c.o.d -o CMakeFiles/sam-dump.dir/rna_splice_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/rna_splice_log.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-dump.dir/link.d "CMakeFiles/fastq-dump.dir/factory.c.o" "CMakeFiles/fastq-dump.dir/fasta_dump.c.o" "CMakeFiles/fastq-dump.dir/core.c.o" "CMakeFiles/fastq-dump.dir/fastq.c.o" -o ../../../bin/fastq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-dump fastq-dump.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build [ 55%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o -MF CMakeFiles/sratools.dir/file-path.posix.cpp.o.d -o CMakeFiles/sratools.dir/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3.0.9 fastq-dump.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3 fastq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fastq-dump-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 55%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o -MF CMakeFiles/vdb-validate.dir/main.c.o.d -o CMakeFiles/vdb-validate.dir/main.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/main.c [ 55%] Built target fastq-dump make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o -MF CMakeFiles/prefetch.dir/PrfOutFile.c.o.d -o CMakeFiles/prefetch.dir/PrfOutFile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfOutFile.c [ 55%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o -MF CMakeFiles/qa-stats.dir/output.cpp.o.d -o CMakeFiles/qa-stats.dir/output.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/output.cpp [ 55%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o -MF CMakeFiles/fasterq-dump.dir/arg_helper.c.o.d -o CMakeFiles/fasterq-dump.dir/arg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/arg_helper.c [ 55%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -MF CMakeFiles/fasterq-dump.dir/dflt_defline.c.o.d -o CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/dflt_defline.c [ 55%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tool_ctx.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && 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tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c: In function 'tctx_extract_short_accession': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c:348:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 348 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ [ 55%] Linking C executable ../../../bin/abi-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-dump.dir/link.txt --verbose=1 [ 56%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 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CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp [ 56%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o -MF CMakeFiles/sam-dump.dir/out_redir.c.o.d -o CMakeFiles/sam-dump.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c [ 57%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-dump.dir/link.d "CMakeFiles/abi-dump.dir/factory.c.o" "CMakeFiles/abi-dump.dir/fasta_dump.c.o" "CMakeFiles/abi-dump.dir/core.c.o" "CMakeFiles/abi-dump.dir/abi.c.o" -o ../../../bin/abi-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o -MF 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c [ 57%] Built target abi-dump make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f 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-fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -MF CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o.d -o CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-decrypt.c [ 58%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o -MF CMakeFiles/vdb-config.dir/interactive2.cpp.o.d -o CMakeFiles/vdb-config.dir/interactive2.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/interactive2.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/prefetch.dir/link.d "CMakeFiles/prefetch.dir/kfile-no-q.c.o" CMakeFiles/prefetch.dir/PrfMain.c.o CMakeFiles/prefetch.dir/prefetch.c.o CMakeFiles/prefetch.dir/PrfRetrier.c.o CMakeFiles/prefetch.dir/PrfOutFile.c.o -o ../../../bin/prefetch ../../../ilib/libascp.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f prefetch.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv prefetch prefetch.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3.0.9 prefetch.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3 prefetch cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 prefetch-driver [ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o -MF CMakeFiles/sra-pileup.dir/report_deletes.c.o.d -o CMakeFiles/sra-pileup.dir/report_deletes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/report_deletes.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 58%] Built target prefetch make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt 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tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -MF CMakeFiles/vdb-decrypt.dir/shared.c.o.d -o CMakeFiles/vdb-decrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c [ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr1.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr1.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-hdr1.c [ 58%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -MF CMakeFiles/vdb-encrypt.dir/shared.c.o.d -o CMakeFiles/vdb-encrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c [ 58%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-tools.c [ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o -MF CMakeFiles/sra-pileup.dir/ref_regions.c.o.d -o CMakeFiles/sra-pileup.dir/ref_regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_regions.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-corrupt.dir/link.d "CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o" -o ../../../bin/check-corrupt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-corrupt.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-corrupt check-corrupt.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3.0.9 check-corrupt.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3 check-corrupt make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 58%] Built target check-corrupt make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath/CMakeFiles/srapath.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 58%] Linking CXX executable ../../../test-bin/Test_Drivertool_SDLResponse /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c: In function 'insp_report': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:1165:14: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized] 1165 | rc = KOutMsg( "... is %s\n", s_acc_type ); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:248:18: note: 'res' was declared here 248 | const char * res; | ^~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_SDLResponse.dir/link.txt --verbose=1 [ 58%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o -MF CMakeFiles/srapath.dir/helper.c.o.d -o CMakeFiles/srapath.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/helper.c [ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o -MF CMakeFiles/sam-dump.dir/matecache.c.o.d -o CMakeFiles/sam-dump.dir/matecache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/matecache.c [ 58%] Linking C executable ../../../bin/vdb-decrypt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-decrypt.dir/link.txt --verbose=1 [ 58%] Linking C executable ../../../bin/vdb-encrypt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-encrypt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_SDLResponse.dir/link.d "CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o" -o ../../../test-bin/Test_Drivertool_SDLResponse [ 58%] Linking CXX executable ../../../bin/qa-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qa-stats.dir/link.txt --verbose=1 [ 58%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o -MF CMakeFiles/fasterq-dump.dir/sbuffer.c.o.d -o CMakeFiles/fasterq-dump.dir/sbuffer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/sbuffer.c [ 58%] Built target Test_Drivertool_SDLResponse make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat/CMakeFiles/sra-stat.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 58%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o -MF CMakeFiles/sra-stat.dir/assembly-statistics.c.o.d -o CMakeFiles/sra-stat.dir/assembly-statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/assembly-statistics.c make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain/CMakeFiles/rcexplain.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-encrypt.dir/link.d "CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o" "CMakeFiles/vdb-encrypt.dir/shared.c.o" -o ../../../bin/vdb-encrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-encrypt.3.0.9 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-decrypt.dir/link.d "CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o" "CMakeFiles/vdb-decrypt.dir/shared.c.o" -o ../../../bin/vdb-decrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-decrypt.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-encrypt vdb-encrypt.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-decrypt vdb-decrypt.3.0.9 make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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vdb-encrypt.3.0.9 vdb-encrypt.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-decrypt.3.0.9 vdb-decrypt.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-encrypt.3 vdb-encrypt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-decrypt.3 vdb-decrypt /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/qa-stats.dir/link.d "CMakeFiles/qa-stats.dir/main.cpp.o" "CMakeFiles/qa-stats.dir/input.cpp.o" "CMakeFiles/qa-stats.dir/output.cpp.o" -o ../../../bin/qa-stats make[3]: Leaving directory 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker_0.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker_0.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o -MF CMakeFiles/fasterq-dump.dir/err_msg.c.o.d -o CMakeFiles/fasterq-dump.dir/err_msg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/err_msg.c [ 62%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o -MF CMakeFiles/vdb-validate.dir/check-redact.c.o.d -o CMakeFiles/vdb-validate.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-redact.c [ 62%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -MF CMakeFiles/fasterq-dump.dir/file_tools.c.o.d -o CMakeFiles/fasterq-dump.dir/file_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_tools.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rcexplain.dir/link.d CMakeFiles/rcexplain.dir/rcexplain.c.o -o ../../../bin/rcexplain /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rcexplain.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rcexplain rcexplain.3.0.9 [ 62%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3.0.9 rcexplain.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3 rcexplain make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 62%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o [ 62%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o -MF CMakeFiles/sam-dump.dir/sam-aligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-aligned.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o -MF CMakeFiles/sra-stat.dir/sra-stat.c.o.d -o CMakeFiles/sra-stat.dir/sra-stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra-stat.c [ 62%] Built target rcexplain [ 62%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o -MF CMakeFiles/srapath.dir/repository-mgr.c.o.d -o CMakeFiles/srapath.dir/repository-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/repository-mgr.c make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 62%] Building C object tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cache-mgr\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -MF CMakeFiles/cache-mgr.dir/cache-mgr.c.o.d -o CMakeFiles/cache-mgr.dir/cache-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c [ 62%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/services.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/services.c.o -MF CMakeFiles/srapath.dir/services.c.o.d -o CMakeFiles/srapath.dir/services.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/services.c [ 63%] Linking C executable ../../../bin/kdbmeta cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdbmeta.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_report': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:702:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 702 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:699:17: note: 'data' declared here 699 | report_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:696:41: note: 'octx' declared here 696 | static rc_t perform_report( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_unlock': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:905:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 905 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:902:17: note: 'data' declared here 902 | unlock_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:899:41: note: 'octx' declared here 899 | static rc_t perform_unlock( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_clear': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:990:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] 990 | octx->data = &data; | ~~~~~~~~~~~^~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:987:16: note: 'data' declared here 987 | clear_data data; | ^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:984:40: note: 'octx' declared here 984 | static rc_t perform_clear( visit_ctx * octx ) | ~~~~~~~~~~~~^~~~ [ 63%] Linking C executable ../../../bin/align-info cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-info.dir/link.txt --verbose=1 [ 63%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o -MF CMakeFiles/fasterq-dump.dir/var_fmt.c.o.d -o CMakeFiles/fasterq-dump.dir/var_fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/var_fmt.c [ 63%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o -MF CMakeFiles/sam-dump.dir/sam-unaligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-unaligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-unaligned.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdbmeta.dir/link.d CMakeFiles/kdbmeta.dir/kdbmeta.c.o -o ../../../bin/kdbmeta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdbmeta.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdbmeta kdbmeta.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3.0.9 kdbmeta.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3 kdbmeta make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 64%] Linking C executable ../../../bin/vdb-validate cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-validate.dir/link.txt --verbose=1 [ 64%] Built target kdbmeta make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader/CMakeFiles/bam-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-info.dir/link.d "CMakeFiles/align-info.dir/align-info.c.o" -o ../../../bin/align-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-info.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-info align-info.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3.0.9 align-info.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3 align-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 64%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o -MF CMakeFiles/bam-load.dir/bam-loader.c.o.d -o CMakeFiles/bam-load.dir/bam-loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam-loader.c [ 64%] Built target align-info make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-validate.dir/link.d "CMakeFiles/vdb-validate.dir/main.c.o" "CMakeFiles/vdb-validate.dir/vdb-validate.c.o" "CMakeFiles/vdb-validate.dir/check-redact.c.o" -o ../../../bin/vdb-validate /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-validate.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-validate vdb-validate.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3.0.9 vdb-validate.3 make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3 vdb-validate make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 64%] Built target vdb-validate [ 64%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o -MF CMakeFiles/latf-load.dir/spot-assembler.c.o.d -o CMakeFiles/latf-load.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c make -f 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o -MF CMakeFiles/sff-load.dir/pstring.c.o.d -o CMakeFiles/sff-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 65%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix 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tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -MF CMakeFiles/srapath.dir/cgi_request.c.o.d -o CMakeFiles/srapath.dir/cgi_request.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/cgi_request.c [ 65%] Linking C executable ../../../bin/cache-mgr cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cmake -E cmake_link_script CMakeFiles/cache-mgr.dir/link.txt --verbose=1 [ 65%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o -MF CMakeFiles/latf-load.dir/common-writer.c.o.d -o CMakeFiles/latf-load.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c [ 65%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -MF CMakeFiles/fasterq-dump.dir/progress_thread.c.o.d -o CMakeFiles/fasterq-dump.dir/progress_thread.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/progress_thread.c [ 65%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_index.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cache-mgr.dir/link.d "CMakeFiles/cache-mgr.dir/cache-mgr.c.o" -o ../../../bin/cache-mgr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cache-mgr.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cache-mgr cache-mgr.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3.0.9 cache-mgr.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3 cache-mgr make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target cache-mgr make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/fastq-load.dir/DependInfo.cmake "--color=" [ 65%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -MF CMakeFiles/sam-dump.dir/md_flag.c.o.d -o 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-I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -MF CMakeFiles/fastq-load.dir/pstring.c.o.d -o CMakeFiles/fastq-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 66%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -MF CMakeFiles/latf-load.dir/sequence-writer.c.o.d -o CMakeFiles/latf-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c [ 67%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -MF CMakeFiles/sra-pileup.dir/pileup_v2.c.o.d -o 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-fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -MF CMakeFiles/sam-dump.dir/sam-dump3.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -MF CMakeFiles/latf-load.dir/common-reader.c.o.d -o CMakeFiles/latf-load.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c [ 69%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -MF CMakeFiles/fasterq-dump.dir/locked_file_list.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_file_list.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c: In function 'KMain': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c:557:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 557 | ReportBuildDate( __DATE__ ); | ^~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, | ^~~~~~~~~~~~~~~~~ /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srapath.dir/link.d CMakeFiles/srapath.dir/helper.c.o CMakeFiles/srapath.dir/line_iter.c.o "CMakeFiles/srapath.dir/repository-mgr.c.o" CMakeFiles/srapath.dir/services.c.o CMakeFiles/srapath.dir/cgi_request.c.o CMakeFiles/srapath.dir/srapath.c.o -o ../../../bin/srapath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srapath.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srapath srapath.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3.0.9 srapath.3 [ 70%] Linking C executable ../../../bin/test-sra cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra.dir/link.txt --verbose=1 [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -MF CMakeFiles/fastq-load.dir/experiment-xml.c.o.d -o CMakeFiles/fastq-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3 srapath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 srapath-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 70%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -MF CMakeFiles/sff-load.dir/run-xml.c.o.d -o CMakeFiles/sff-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 70%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -MF CMakeFiles/sam-dump.dir/dyn_string.c.o.d -o CMakeFiles/sam-dump.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/dyn_string.c [ 70%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o -MF CMakeFiles/fasterq-dump.dir/locked_value.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_value.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_value.c [ 71%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c [ 72%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o [ 72%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o -MF CMakeFiles/fasterq-dump.dir/file_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/file_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_printer.c [ 72%] Built target srapath cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/srf-load.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra.dir/link.d "CMakeFiles/test-sra.dir/test-sra.c.o" "CMakeFiles/test-sra.dir/unix/PrintOS.c.o" -o ../../../bin/test-sra ../../../ilib/libascp.a ../../../ilib/libdiagnose.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-sra.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-sra test-sra.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3.0.9 test-sra.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3 test-sra make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 72%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -MF CMakeFiles/abi-load.dir/pstring.c.o.d -o CMakeFiles/abi-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 73%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb 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tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o -MF CMakeFiles/srf-load.dir/common-xml.c.o.d -o CMakeFiles/srf-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c [ 73%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c [ 73%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c [ 73%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o -MF CMakeFiles/sff-load.dir/loader-fmt.c.o.d -o CMakeFiles/sff-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -MF CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/raw_read_iter.c [ 73%] Linking C executable ../../../bin/sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-pileup.dir/link.txt --verbose=1 [ 73%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp [ 73%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o -MF CMakeFiles/srf-load.dir/run-xml.c.o.d -o CMakeFiles/srf-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 73%] Linking CXX executable ../../../bin/sratools cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/sratools.dir/link.txt --verbose=1 [ 73%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-pileup.dir/link.d "CMakeFiles/sra-pileup.dir/dyn_string.c.o" "CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o" "CMakeFiles/sra-pileup.dir/out_redir.c.o" "CMakeFiles/sra-pileup.dir/perf_log.c.o" "CMakeFiles/sra-pileup.dir/reref.c.o" "CMakeFiles/sra-pileup.dir/cg_tools.c.o" "CMakeFiles/sra-pileup.dir/report_deletes.c.o" "CMakeFiles/sra-pileup.dir/ref_regions.c.o" "CMakeFiles/sra-pileup.dir/4na_ascii.c.o" "CMakeFiles/sra-pileup.dir/ref_walker_0.c.o" "CMakeFiles/sra-pileup.dir/ref_walker.c.o" "CMakeFiles/sra-pileup.dir/walk_debug.c.o" "CMakeFiles/sra-pileup.dir/pileup_counters.c.o" "CMakeFiles/sra-pileup.dir/pileup_index.c.o" "CMakeFiles/sra-pileup.dir/pileup_indels.c.o" "CMakeFiles/sra-pileup.dir/pileup_varcount.c.o" "CMakeFiles/sra-pileup.dir/pileup_stat.c.o" "CMakeFiles/sra-pileup.dir/pileup_v2.c.o" "CMakeFiles/sra-pileup.dir/sra-pileup.c.o" -o ../../../bin/sra-pileup /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-pileup sra-pileup.3.0.9 [ 73%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o [ 73%] Linking C executable ../../../bin/sam-dump [ 73%] Linking CXX executable ../../../bin/vdb-config cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -MF CMakeFiles/fasterq-dump.dir/special_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/special_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/special_iter.c [ 73%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o cd 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o -MF CMakeFiles/sff-load.dir/sra-writer.c.o.d -o CMakeFiles/sff-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3.0.9 sra-pileup.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3 sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sra-pileup-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 73%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o cd 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CMakeFiles/bam-load.dir/sam.c.o.d -o CMakeFiles/bam-load.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c [ 73%] Built target sra-pileup make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/illumina-load.dir/DependInfo.cmake "--color=" [ 73%] Linking C executable ../../../bin/sra-stat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-stat.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-dump.dir/link.d "CMakeFiles/sam-dump.dir/inputfiles.c.o" "CMakeFiles/sam-dump.dir/perf_log.c.o" "CMakeFiles/sam-dump.dir/rna_splice_log.c.o" "CMakeFiles/sam-dump.dir/sam-dump-opts.c.o" "CMakeFiles/sam-dump.dir/out_redir.c.o" "CMakeFiles/sam-dump.dir/sam-hdr.c.o" "CMakeFiles/sam-dump.dir/sam-hdr1.c.o" "CMakeFiles/sam-dump.dir/matecache.c.o" "CMakeFiles/sam-dump.dir/read_fkt.c.o" "CMakeFiles/sam-dump.dir/sam-aligned.c.o" "CMakeFiles/sam-dump.dir/sam-unaligned.c.o" "CMakeFiles/sam-dump.dir/md_flag.c.o" "CMakeFiles/sam-dump.dir/cg_tools.c.o" "CMakeFiles/sam-dump.dir/sam-dump.c.o" "CMakeFiles/sam-dump.dir/sam-dump3.c.o" "CMakeFiles/sam-dump.dir/dyn_string.c.o" -o ../../../bin/sam-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sam-dump.3.0.9 [ 74%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o [ 75%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o -MF CMakeFiles/illumina-load.dir/pstring.c.o.d -o CMakeFiles/illumina-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_ua_iter.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sam-dump sam-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3.0.9 sam-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3 sam-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sam-dump-driver make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o -MF CMakeFiles/sff-load.dir/loader.c.o.d -o CMakeFiles/sff-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 75%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-formats.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 75%] Built target sam-dump make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/depend /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-stat.dir/link.d "CMakeFiles/sra-stat.dir/assembly-statistics.c.o" "CMakeFiles/sra-stat.dir/sra.c.o" "CMakeFiles/sra-stat.dir/sra-stat.c.o" -o ../../../bin/sra-stat ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-stat.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/helicos-load.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-stat sra-stat.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3.0.9 sra-stat.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3 sra-stat make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_csra_iter.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-config.dir/link.d "CMakeFiles/vdb-config.dir/configure.cpp.o" "CMakeFiles/vdb-config.dir/util.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config.c.o" "CMakeFiles/vdb-config.dir/interactive2.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o" -o ../../../bin/vdb-config ../../../ilib/libtui_cpp.a ../../../ilib/libtui.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-config.3.0.9 [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o -MF CMakeFiles/fastq-load.dir/loader-file.c.o.d -o CMakeFiles/fastq-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o [ 75%] Built target sra-stat cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-config vdb-config.3.0.9 make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o -MF CMakeFiles/srf-load.dir/loader-file.c.o.d -o CMakeFiles/srf-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3.0.9 vdb-config.3 [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o -MF CMakeFiles/helicos-load.dir/pstring.c.o.d -o CMakeFiles/helicos-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3 vdb-config cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -MF CMakeFiles/abi-load.dir/experiment-xml.c.o.d -o CMakeFiles/abi-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sratools.dir/link.d CMakeFiles/sratools.dir/sratools.cpp.o CMakeFiles/sratools.dir/config.cpp.o "CMakeFiles/sratools.dir/command-line.cpp.o" "CMakeFiles/sratools.dir/run-source.cpp.o" CMakeFiles/sratools.dir/proc.cpp.o CMakeFiles/sratools.dir/uuid.cpp.o CMakeFiles/sratools.dir/accession.cpp.o CMakeFiles/sratools.dir/service.cpp.o "CMakeFiles/sratools.dir/json-parse.cpp.o" "CMakeFiles/sratools.dir/SDL-response.cpp.o" "CMakeFiles/sratools.dir/tool-args.cpp.o" "CMakeFiles/sratools.dir/build-version.cpp.o" "CMakeFiles/sratools.dir/file-path.posix.cpp.o" CMakeFiles/sratools.dir/proc.posix.cpp.o -o ../../../bin/sratools /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sratools.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o -MF CMakeFiles/pacbio-loadxml.dir/pstring.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E copy /usr/include/ncbi-vdb/kfg/ncbi/default.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/default.kfg cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sratools sratools.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sratools.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3 sratools make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 75%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o -MF CMakeFiles/sff-load.dir/writer-454.c.o.d -o 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-fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -MF CMakeFiles/srf-load.dir/loader-fmt.c.o.d -o CMakeFiles/srf-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 76%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-redir.c [ 76%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix 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-I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o -MF CMakeFiles/latf-load.dir/id2name.c.o.d -o CMakeFiles/latf-load.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c [ 77%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o -MF CMakeFiles/cg-load.dir/cg-load.c.o.d -o CMakeFiles/cg-load.dir/cg-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c [ 77%] Linking CXX executable ../../../test-bin/Test_SraInfo_Unit cd 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-DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o -MF CMakeFiles/helicos-load.dir/common-xml.c.o.d -o CMakeFiles/helicos-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c [ 77%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/common-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c: In function 'DB_Fini': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c:229:65: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 229 | if( (rc = KLoaderMeta_Write(node, p->argv0, __DATE__, "Complete Genomics", KAppVersion())) != 0 ) { | ^~~~~~~~ [ 77%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o [ 77%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o [ 77%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -MF CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/simple_fasta_iter.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o -MF CMakeFiles/fastq-load.dir/sra-writer.c.o.d -o CMakeFiles/fastq-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 77%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -MF CMakeFiles/srf-load.dir/loader.c.o.d -o CMakeFiles/srf-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-loader.c.o -MF CMakeFiles/latf-load.dir/fastq-loader.c.o.d -o CMakeFiles/latf-load.dir/fastq-loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-loader.c [ 77%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o [ 78%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/sff-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-fastq.c [ 78%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -MF CMakeFiles/sff-load.dir/sff-fmt.c.o.d -o CMakeFiles/sff-load.dir/sff-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sff-fmt.c [ 78%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -MF CMakeFiles/srf-load.dir/srf.c.o.d -o CMakeFiles/srf-load.dir/srf.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_SraInfo_Unit.dir/link.d "CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o" -o ../../../test-bin/Test_SraInfo_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 79%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5dir.c [ 79%] Built target Test_SraInfo_Unit make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp [ 79%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o [ 79%] Building C object 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c [ 80%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -MF CMakeFiles/pacbio-load.dir/pl-context.c.o.d -o CMakeFiles/pacbio-load.dir/pl-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-context.c [ 80%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-intervals.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-load.dir/link.d "CMakeFiles/sff-load.dir/pstring.c.o" "CMakeFiles/sff-load.dir/common-xml.c.o" "CMakeFiles/sff-load.dir/experiment-xml.c.o" "CMakeFiles/sff-load.dir/run-xml.c.o" "CMakeFiles/sff-load.dir/loader-file.c.o" "CMakeFiles/sff-load.dir/loader-fmt.c.o" "CMakeFiles/sff-load.dir/sra-writer.c.o" "CMakeFiles/sff-load.dir/loader.c.o" "CMakeFiles/sff-load.dir/writer-454.c.o" "CMakeFiles/sff-load.dir/writer-ion-torrent.c.o" "CMakeFiles/sff-load.dir/sff-fmt.c.o" -o ../../../bin/sff-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-load sff-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3.0.9 sff-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3 sff-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 80%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o [ 80%] Linking C executable ../../../bin/latf-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o -MF CMakeFiles/abi-load.dir/loader-file.c.o.d -o CMakeFiles/abi-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/latf-load.dir/link.txt --verbose=1 [ 80%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o -MF CMakeFiles/bam-load.dir/sequence-writer.c.o.d -o CMakeFiles/bam-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sequence-writer.c [ 80%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -MF CMakeFiles/srf-load.dir/writer-illumina.c.o.d -o CMakeFiles/srf-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c [ 80%] Built target sff-load make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/DependInfo.cmake "--color=" [ 80%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -MF CMakeFiles/pacbio-load.dir/pl-tools.c.o.d -o CMakeFiles/pacbio-load.dir/pl-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-tools.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 80%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-inspect.c [ 81%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -MF CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o.d -o CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/latf-load.dir/link.d "CMakeFiles/latf-load.dir/spot-assembler.c.o" "CMakeFiles/latf-load.dir/common-writer.c.o" "CMakeFiles/latf-load.dir/sequence-writer.c.o" "CMakeFiles/latf-load.dir/common-reader.c.o" "CMakeFiles/latf-load.dir/fastq-reader.c.o" "CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o" "CMakeFiles/latf-load.dir/zz_fastq-lex.c.o" "CMakeFiles/latf-load.dir/id2name.c.o" "CMakeFiles/latf-load.dir/fastq-loader.c.o" "CMakeFiles/latf-load.dir/loader-imp.c.o" -o ../../../bin/latf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f latf-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv latf-load latf-load.3.0.9 [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o -MF CMakeFiles/helicos-load.dir/loader-file.c.o.d -o CMakeFiles/helicos-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 81%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX 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[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o [ 81%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-fmt.c.o -MF CMakeFiles/abi-load.dir/loader-fmt.c.o.d -o CMakeFiles/abi-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3 latf-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 82%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o [ 82%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -MF CMakeFiles/fastq-load.dir/writer-454.c.o.d -o CMakeFiles/fastq-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o -MF CMakeFiles/illumina-load.dir/run-xml.c.o.d -o CMakeFiles/illumina-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c [ 82%] Built target latf-load make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/depend In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:32: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/../database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o.d -o 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -MF CMakeFiles/vdb-dump.dir/vdb_info.c.o.d -o CMakeFiles/vdb-dump.dir/vdb_info.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb_info.c [ 83%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o -MF CMakeFiles/srf-load.dir/ztr-illumina.c.o.d -o CMakeFiles/srf-load.dir/ztr-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-illumina.c [ 83%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c [ 83%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader.c.o -MF CMakeFiles/abi-load.dir/loader.c.o.d -o CMakeFiles/abi-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-file.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o -MF CMakeFiles/fastq-load.dir/fastq-fmt.c.o.d -o CMakeFiles/fastq-load.dir/fastq-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/fastq-fmt.c [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o [ 84%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -MF CMakeFiles/helicos-load.dir/writer-helicos.c.o.d -o CMakeFiles/helicos-load.dir/writer-helicos.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-helicos.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o -MF CMakeFiles/pacbio-load.dir/pl-sequence.c.o.d -o CMakeFiles/pacbio-load.dir/pl-sequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-sequence.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -MF CMakeFiles/illumina-load.dir/loader-fmt.c.o.d -o CMakeFiles/illumina-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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-D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o -MF CMakeFiles/helicos-load.dir/helicos-fmt.c.o.d -o CMakeFiles/helicos-load.dir/helicos-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/helicos-fmt.c [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -MF CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o.d -o CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -MF CMakeFiles/fasterq-dump.dir/copy_machine.c.o.d -o CMakeFiles/fasterq-dump.dir/copy_machine.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/copy_machine.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:3453:44: warning: "/*" within comment [-Wcomment] 3453 | int const logLevel = klogWarn; /*G.assembleWithSecondary ? klogWarn : klogErr; /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:4163:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 4163 | rc = KLoaderMeta_Write(node, progName, __DATE__, "BAM", KAppVersion()); | ^~~~~~~~ [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o -MF CMakeFiles/illumina-load.dir/sra-writer.c.o.d -o CMakeFiles/illumina-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o -MF CMakeFiles/srf-load.dir/srf-illumina.c.o.d -o CMakeFiles/srf-load.dir/srf-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-illumina.c [ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o [ 84%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o [ 84%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o -MF CMakeFiles/fasterq-dump.dir/multi_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/multi_writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/multi_writer.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -MF CMakeFiles/cg-load.dir/factory-mappings.c.o.d -o CMakeFiles/cg-load.dir/factory-mappings.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o -MF CMakeFiles/pacbio-load.dir/pl-consensus.c.o.d -o CMakeFiles/pacbio-load.dir/pl-consensus.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-consensus.c [ 84%] Linking C executable ../../../bin/fastq-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-load.dir/link.txt --verbose=1 [ 84%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -MF CMakeFiles/cg-load.dir/factory-reads.c.o.d -o CMakeFiles/cg-load.dir/factory-reads.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-reads.c [ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o -MF CMakeFiles/fasterq-dump.dir/concatenator.c.o.d -o CMakeFiles/fasterq-dump.dir/concatenator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/concatenator.c [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -MF CMakeFiles/fasterq-dump.dir/ref_inventory.c.o.d -o CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/ref_inventory.c [ 85%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o -MF CMakeFiles/pacbio-load.dir/pl-passes.c.o.d -o CMakeFiles/pacbio-load.dir/pl-passes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-passes.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ [ 85%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o -MF CMakeFiles/srf-load.dir/writer-absolid.c.o.d -o CMakeFiles/srf-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c [ 85%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o -MF CMakeFiles/illumina-load.dir/loader.c.o.d -o CMakeFiles/illumina-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c [ 85%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o -MF CMakeFiles/srf-load.dir/ztr-absolid.c.o.d -o CMakeFiles/srf-load.dir/ztr-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-absolid.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings15_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:248:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 248 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:225:14: note: 'tmp' declared here 225 | char tmp[2]; | ^~~ [ 85%] Linking C executable ../../../bin/helicos-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/helicos-load.dir/link.txt --verbose=1 [ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o -MF CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o.d -o CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fasterq-dump.c [ 85%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3vdb.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-load.dir/link.d "CMakeFiles/fastq-load.dir/pstring.c.o" "CMakeFiles/fastq-load.dir/common-xml.c.o" "CMakeFiles/fastq-load.dir/experiment-xml.c.o" "CMakeFiles/fastq-load.dir/run-xml.c.o" "CMakeFiles/fastq-load.dir/loader-file.c.o" "CMakeFiles/fastq-load.dir/loader-fmt.c.o" "CMakeFiles/fastq-load.dir/sra-writer.c.o" "CMakeFiles/fastq-load.dir/loader.c.o" "CMakeFiles/fastq-load.dir/writer-illumina.c.o" "CMakeFiles/fastq-load.dir/writer-454.c.o" "CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o" "CMakeFiles/fastq-load.dir/fastq-fmt.c.o" -o ../../../bin/fastq-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-load.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); | ^~~~~~~~ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-load fastq-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3.0.9 fastq-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3 fastq-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 85%] Built target fastq-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings22_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:311:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 311 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:287:14: note: 'tmp' declared here 287 | char tmp[2]; | ^~~ [ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o [ 86%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o -MF CMakeFiles/pacbio-load.dir/pl-metrics.c.o.d -o CMakeFiles/pacbio-load.dir/pl-metrics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-metrics.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pacbio-fmt.c [ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -MF CMakeFiles/pacbio-load.dir/pl-regions.c.o.d -o CMakeFiles/pacbio-load.dir/pl-regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-regions.c [ 86%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o -MF CMakeFiles/abi-load.dir/writer-absolid.c.o.d -o CMakeFiles/abi-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/helicos-load.dir/link.d "CMakeFiles/helicos-load.dir/pstring.c.o" "CMakeFiles/helicos-load.dir/common-xml.c.o" "CMakeFiles/helicos-load.dir/experiment-xml.c.o" "CMakeFiles/helicos-load.dir/run-xml.c.o" "CMakeFiles/helicos-load.dir/loader-file.c.o" "CMakeFiles/helicos-load.dir/loader-fmt.c.o" "CMakeFiles/helicos-load.dir/sra-writer.c.o" "CMakeFiles/helicos-load.dir/loader.c.o" "CMakeFiles/helicos-load.dir/writer-helicos.c.o" "CMakeFiles/helicos-load.dir/helicos-fmt.c.o" -o ../../../bin/helicos-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f helicos-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv helicos-load helicos-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3.0.9 helicos-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3 helicos-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings25_Read': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:382:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] 382 | if( tmp[0] < 33 || tmp[0] > 126 ) { | ~~~^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:358:14: note: 'tmp' declared here 358 | char tmp[2]; | ^~~ [ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o [ 86%] Built target helicos-load [ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o -MF CMakeFiles/pacbio-load.dir/pacbio-load.c.o.d -o CMakeFiles/pacbio-load.dir/pacbio-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/Build-prefetch.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o -MF CMakeFiles/pacbio-load.dir/pl-progress.c.o.d -o CMakeFiles/pacbio-load.dir/pl-progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-progress.c [ 87%] Linking C executable ../../../bin/vdb-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/prefetch/CMakeFiles/Build-prefetch.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 87%] Linking C executable ../../../bin/fasterq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fasterq-dump.dir/link.txt --verbose=1 [ 88%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -MF CMakeFiles/srf-load.dir/ztr-huffman.c.o.d -o CMakeFiles/srf-load.dir/ztr-huffman.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-huffman.c [ 88%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o [ 88%] Built target Build-prefetch cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -MF CMakeFiles/srf-load.dir/srf-absolid.c.o.d -o CMakeFiles/srf-load.dir/srf-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-absolid.c make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath/CMakeFiles/Build-srapath.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/srapath/CMakeFiles/Build-srapath.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c: In function 'pacbio_meta_entry': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c:219:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 219 | rc = KLoaderMeta_Write( node, toolname, __DATE__, "PacBio HDF5", KAppVersion() ); | ^~~~~~~~ [ 88%] Built target Build-srapath make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 88%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump.dir/link.d "CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o" "CMakeFiles/vdb-dump.dir/vdb_info.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump.c.o" -o ../../../bin/vdb-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm [ 88%] Built target Build-sra-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o -MF CMakeFiles/illumina-load.dir/writer-illumina.c.o.d -o CMakeFiles/illumina-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-dump vdb-dump.3.0.9 [ 88%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3.0.9 vdb-dump.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -MF CMakeFiles/cg-load.dir/factory-tag-lfr.c.o.d -o CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-tag-lfr.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3 vdb-dump /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fasterq-dump.dir/link.d "CMakeFiles/fasterq-dump.dir/helper.c.o" "CMakeFiles/fasterq-dump.dir/arg_helper.c.o" "CMakeFiles/fasterq-dump.dir/dflt_defline.c.o" "CMakeFiles/fasterq-dump.dir/tool_ctx.c.o" "CMakeFiles/fasterq-dump.dir/inspector.c.o" "CMakeFiles/fasterq-dump.dir/sbuffer.c.o" "CMakeFiles/fasterq-dump.dir/err_msg.c.o" "CMakeFiles/fasterq-dump.dir/file_tools.c.o" "CMakeFiles/fasterq-dump.dir/var_fmt.c.o" "CMakeFiles/fasterq-dump.dir/flex_printer.c.o" "CMakeFiles/fasterq-dump.dir/temp_dir.c.o" "CMakeFiles/fasterq-dump.dir/progress_thread.c.o" "CMakeFiles/fasterq-dump.dir/cleanup_task.c.o" "CMakeFiles/fasterq-dump.dir/index.c.o" "CMakeFiles/fasterq-dump.dir/lookup_writer.c.o" "CMakeFiles/fasterq-dump.dir/lookup_reader.c.o" "CMakeFiles/fasterq-dump.dir/locked_file_list.c.o" "CMakeFiles/fasterq-dump.dir/locked_value.c.o" "CMakeFiles/fasterq-dump.dir/file_printer.c.o" "CMakeFiles/fasterq-dump.dir/merge_sorter.c.o" "CMakeFiles/fasterq-dump.dir/sorter.c.o" "CMakeFiles/fasterq-dump.dir/cmn_iter.c.o" "CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o" "CMakeFiles/fasterq-dump.dir/special_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o" "CMakeFiles/fasterq-dump.dir/align_iter.c.o" "CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o" "CMakeFiles/fasterq-dump.dir/db_join.c.o" "CMakeFiles/fasterq-dump.dir/tbl_join.c.o" "CMakeFiles/fasterq-dump.dir/temp_registry.c.o" "CMakeFiles/fasterq-dump.dir/copy_machine.c.o" "CMakeFiles/fasterq-dump.dir/multi_writer.c.o" "CMakeFiles/fasterq-dump.dir/concatenator.c.o" "CMakeFiles/fasterq-dump.dir/ref_inventory.c.o" "CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o" -o ../../../bin/fasterq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fasterq-dump.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 vdb-dump-driver cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fasterq-dump fasterq-dump.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3.0.9 fasterq-dump.3 [ 88%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -MF CMakeFiles/cg-load.dir/f1_3.c.o.d -o CMakeFiles/cg-load.dir/f1_3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_3.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3 fasterq-dump cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fasterq-dump-driver [ 88%] Built target vdb-dump make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/DependInfo.cmake "--color=" [ 88%] Built target fasterq-dump make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build [ 89%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o -MF CMakeFiles/abi-load.dir/absolid-fmt.c.o.d -o CMakeFiles/abi-load.dir/absolid-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/absolid-fmt.c [ 90%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o -MF CMakeFiles/illumina-load.dir/illumina-fmt.c.o.d -o CMakeFiles/illumina-load.dir/illumina-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/illumina-fmt.c [ 90%] Built target Build-sra-stat [ 90%] Built target Build-vdb-config make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/DependInfo.cmake "--color=" make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/DependInfo.cmake "--color=" [ 90%] Linking C executable ../../../bin/pacbio-loadxml cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-loadxml.dir/link.txt --verbose=1 [ 90%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -MF CMakeFiles/cg-load.dir/f1_5.c.o.d -o CMakeFiles/cg-load.dir/f1_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_5.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -MF CMakeFiles/cg-load.dir/f1_7.c.o.d -o CMakeFiles/cg-load.dir/f1_7.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_7.c make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Build-sra-info.dir/DependInfo.cmake "--color=" [ 90%] Built target Build-vdb-validate make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/depend [ 90%] Building CXX object test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -MF CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o.d -o CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/makedb.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sra-info/CMakeFiles/Build-sra-info.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 90%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o -MF CMakeFiles/general-loader.dir/database-loader.cpp.o.d -o CMakeFiles/general-loader.dir/database-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build [ 90%] Built target Build-sra-info make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/DependInfo.cmake "--color=" [ 90%] Built target Build-latf-load make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/DependInfo.cmake "--color=" make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/DependInfo.cmake "--color=" [ 90%] Linking C executable ../../../bin/pacbio-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-load.dir/link.txt --verbose=1 [ 91%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -MF CMakeFiles/cg-load.dir/f2_0.c.o.d -o CMakeFiles/cg-load.dir/f2_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_0.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 91%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -MF CMakeFiles/cg-load.dir/f2_2.c.o.d -o CMakeFiles/cg-load.dir/f2_2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_2.c make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-loadxml.dir/link.d "CMakeFiles/pacbio-loadxml.dir/pstring.c.o" "CMakeFiles/pacbio-loadxml.dir/common-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/run-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-file.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o" "CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o" "CMakeFiles/pacbio-loadxml.dir/loader.c.o" "CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o" -o ../../../bin/pacbio-loadxml ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-loadxml.3.0.9 [ 91%] Building CXX object test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -MF CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o.d -o CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-id2name.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-loadxml pacbio-loadxml.3.0.9 [ 91%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq.cpp [ 91%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -MF CMakeFiles/cg-load.dir/f2_4.c.o.d -o CMakeFiles/cg-load.dir/f2_4.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_4.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3.0.9 pacbio-loadxml.3 [ 92%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq-parse.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3 pacbio-loadxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); | ^~~~~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Linking C executable ../../../bin/srf-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/srf-load.dir/link.txt --verbose=1 [ 92%] Built target pacbio-loadxml make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o -MF CMakeFiles/cg-load.dir/f2_5.c.o.d -o CMakeFiles/cg-load.dir/f2_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_5.c [ 92%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-fastq-loader.cpp [ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o -MF CMakeFiles/cg-load.dir/file.c.o.d -o CMakeFiles/cg-load.dir/file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file.c [ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -MF CMakeFiles/cg-load.dir/file-version-factory.c.o.d -o CMakeFiles/cg-load.dir/file-version-factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file-version-factory.c make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar/CMakeFiles/Build-kar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/kar/CMakeFiles/Build-kar.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o -MF CMakeFiles/cg-load.dir/formats.c.o.d -o CMakeFiles/cg-load.dir/formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/formats.c [ 92%] Linking C executable ../../../bin/abi-load [ 92%] Built target Build-kar make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-load.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache/CMakeFiles/Build-align-cache.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srf-load.dir/link.d "CMakeFiles/srf-load.dir/pstring.c.o" "CMakeFiles/srf-load.dir/common-xml.c.o" "CMakeFiles/srf-load.dir/experiment-xml.c.o" "CMakeFiles/srf-load.dir/run-xml.c.o" "CMakeFiles/srf-load.dir/loader-file.c.o" "CMakeFiles/srf-load.dir/loader-fmt.c.o" "CMakeFiles/srf-load.dir/sra-writer.c.o" "CMakeFiles/srf-load.dir/loader.c.o" "CMakeFiles/srf-load.dir/srf.c.o" "CMakeFiles/srf-load.dir/srf-fmt.c.o" "CMakeFiles/srf-load.dir/writer-illumina.c.o" "CMakeFiles/srf-load.dir/ztr-illumina.c.o" "CMakeFiles/srf-load.dir/srf-illumina.c.o" "CMakeFiles/srf-load.dir/writer-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-huffman.c.o" "CMakeFiles/srf-load.dir/srf-absolid.c.o" -o ../../../bin/srf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srf-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srf-load srf-load.3.0.9 [ 92%] Linking C executable ../../../bin/illumina-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3.0.9 srf-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -MF CMakeFiles/cg-load.dir/writer-algn.c.o.d -o CMakeFiles/cg-load.dir/writer-algn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-algn.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3 srf-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-load.dir/link.d "CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o" "CMakeFiles/pacbio-load.dir/pl-context.c.o" "CMakeFiles/pacbio-load.dir/pl-tools.c.o" "CMakeFiles/pacbio-load.dir/pl-zmw.c.o" "CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o" "CMakeFiles/pacbio-load.dir/pl-sequence.c.o" "CMakeFiles/pacbio-load.dir/pl-consensus.c.o" "CMakeFiles/pacbio-load.dir/pl-passes.c.o" "CMakeFiles/pacbio-load.dir/pl-metrics.c.o" "CMakeFiles/pacbio-load.dir/pl-regions.c.o" "CMakeFiles/pacbio-load.dir/pl-progress.c.o" "CMakeFiles/pacbio-load.dir/pacbio-load.c.o" -o ../../../bin/pacbio-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libpthread.a /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.a -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-load pacbio-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3.0.9 pacbio-load.3 [ 93%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o -MF CMakeFiles/general-loader.dir/main.cpp.o.d -o CMakeFiles/general-loader.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/main.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3 pacbio-load [ 93%] Built target Build-align-cache make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target srf-load make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/DependInfo.cmake "--color=" [ 93%] Built target pacbio-load make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/DependInfo.cmake "--color=" [ 93%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-dnbs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target Build-make-read-filter make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/DependInfo.cmake "--color=" [ 93%] Linking CXX static library ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ngs-c++.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 93%] Linking CXX shared library ../../lib/libngs-c++.so /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-load.dir/link.d "CMakeFiles/abi-load.dir/pstring.c.o" "CMakeFiles/abi-load.dir/common-xml.c.o" "CMakeFiles/abi-load.dir/experiment-xml.c.o" "CMakeFiles/abi-load.dir/run-xml.c.o" "CMakeFiles/abi-load.dir/loader-file.c.o" "CMakeFiles/abi-load.dir/loader-fmt.c.o" "CMakeFiles/abi-load.dir/sra-writer.c.o" "CMakeFiles/abi-load.dir/loader.c.o" "CMakeFiles/abi-load.dir/writer-absolid.c.o" "CMakeFiles/abi-load.dir/absolid-fmt.c.o" -o ../../../bin/abi-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++-shared.dir/link.txt --verbose=1 make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/depend [ 94%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-intervals.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-load abi-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3.0.9 abi-load.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3 abi-load /usr/bin/c++ -fPIC -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,--dependency-file,CMakeFiles/ngs-c++-shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libngs-c++.so.3 -o ../../lib/libngs-c++.so.3.0.9 "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir[ 94%] Linking CXX static library ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ncbi-ngs.dir/cmake_clean_target.cmake /usr/bin/ar qc ../../lib/libngs-c++.a "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.d/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-load.dir/link.d "CMakeFiles/illumina-load.dir/pstring.c.o" "CMakeFiles/illumina-load.dir/common-xml.c.o" "CMakeFiles/illumina-load.dir/experiment-xml.c.o" "CMakeFiles/illumina-load.dir/run-xml.c.o" "CMakeFiles/illumina-load.dir/loader-file.c.o" "CMakeFiles/illumina-load.dir/loader-fmt.c.o" "CMakeFiles/illumina-load.dir/sra-writer.c.o" "CMakeFiles/illumina-load.dir/loader.c.o" "CMakeFiles/illumina-load.dir/writer-illumina.c.o" "CMakeFiles/illumina-load.dir/illumina-fmt.c.o" -o ../../../bin/illumina-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-load.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-load illumina-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3.0.9 illumina-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3 illumina-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target abi-load make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/DependInfo.cmake "--color=" [ 94%] Built target illumina-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build [ 94%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o -MF CMakeFiles/test-general-loader.dir/testsource.cpp.o.d -o CMakeFiles/test-general-loader.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 94%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o /usr/bin/ar qc ../../lib/libncbi-ngs.a "dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollecd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o -MF CMakeFiles/cg-load.dir/writer-seq.c.o.d -o CMakeFiles/cg-load.dir/writer-seq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-seq.c [ 95%] Linking CXX shared library ../../lib/libncbi-ngs.so cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-shared.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,--dependency-file,CMakeFiles/ncbi-ngs-shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libncbi-ngs.so.3 -o ../../lib/libncbi-ngs.so.3.0.9 "dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "language/java/CMake[ 95%] Linking CXX executable ../../../test-bin/Test_Drivertool_RunSource cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_RunSource.dir/link.txt --verbose=1 ir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libngs-c++.a libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3.0.9 libngs-c++.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3 libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a libngs-c++-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Linking CXX executable ../../../test-bin/vdb-dump-makedb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump-makedb.dir/link.txt --verbose=1 /NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libngs-c++.so.3.0.9 ../../lib/libngs-c++.so.3 ../../lib/libngs-c++.so [ 95%] Built target ngs-c++ make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/DependInfo.cmake "--color=" make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/DependInfo.cmake "--color=" make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/DependInfo.cmake "--color=" [ 95%] Linking C executable ../../../bin/cg-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/cg-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' ction.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs.a.3.0.9 [ 95%] Building CXX object test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -MF CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o.d -o CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/pileup_estimator.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs.a libncbi-ngs.a.3.0.9 [ 95%] Building CXX object test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3.0.9 libncbi-ngs.a.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -MF CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o.d -o CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup/test-ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3 libncbi-ngs.a [ 95%] Built target ngs-c++-shared [ 95%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3SelectNew': cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -MF CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o.d -o CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a libncbi-ngs-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -MF CMakeFiles/ngs-pileup.dir/main.cpp.o.d -o CMakeFiles/ngs-pileup.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/main.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115649:10: warning: function may return address of local variable [-Wreturn-local-addr] 115649 | return pNew; | ^~~~ [ 95%] Built target ncbi-ngs make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/DependInfo.cmake "--color=" /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cg-load.dir/link.d "CMakeFiles/cg-load.dir/cg-load.c.o" "CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/factory-mappings.c.o" "CMakeFiles/cg-load.dir/factory-reads.c.o" "CMakeFiles/cg-load.dir/factory-tag-lfr.c.o" "CMakeFiles/cg-load.dir/f1_3.c.o" "CMakeFiles/cg-load.dir/f1_5.c.o" "CMakeFiles/cg-load.dir/f1_7.c.o" "CMakeFiles/cg-load.dir/f2_0.c.o" "CMakeFiles/cg-load.dir/f2_2.c.o" "CMakeFiles/cg-load.dir/f2_4.c.o" "CMakeFiles/cg-load.dir/f2_5.c.o" "CMakeFiles/cg-load.dir/file.c.o" "CMakeFiles/cg-load.dir/file-version-factory.c.o" "CMakeFiles/cg-load.dir/formats.c.o" "CMakeFiles/cg-load.dir/writer-algn.c.o" "CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/writer-seq.c.o" -o ../../../bin/cg-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cg-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cg-load cg-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3.0.9 cg-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3 cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115609:10: note: declared here 115609 | Select standin; | ^~~~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target cg-load make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/DependInfo.cmake "--color=" [ 95%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -MF CMakeFiles/FragTest.dir/FragTest.cpp.o.d -o CMakeFiles/FragTest.dir/FragTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/FragTest.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump-makedb.dir/link.d "CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o" -o ../../../test-bin/vdb-dump-makedb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Files/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libncbi-ngs.so.3.0.9 ../../lib/libncbi-ngs.so.3 ../../lib/libncbi-ngs.so [ 95%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o -MF CMakeFiles/AlignTest.dir/AlignTest.cpp.o.d -o CMakeFiles/AlignTest.dir/AlignTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignTest.cpp [ 95%] Built target vdb-dump-makedb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/depend /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_RunSource.dir/link.d "CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" -o ../../../test-bin/Test_Drivertool_RunSource /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target ncbi-ngs-shared make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/DependInfo.cmake "--color=" [ 95%] Built target Test_Drivertool_RunSource make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/depend [ 95%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -MF CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o.d -o CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignSliceTest.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o -MF CMakeFiles/PileupTest.dir/PileupTest.cpp.o.d -o CMakeFiles/PileupTest.dir/PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/PileupTest.cpp [ 96%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -MF CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o.d -o CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/DumpReferenceFASTA.cpp [ 96%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o -MF CMakeFiles/RefTest.dir/RefTest.cpp.o.d -o CMakeFiles/RefTest.dir/RefTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/RefTest.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ [ 96%] Linking CXX executable ../../../test-bin/RefTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/RefTest.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../test-bin/FragTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragTest.dir/link.txt --verbose=1 In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:113: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:214:7: warning: 'sha1_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 214 | class sha1_filter : public sha_filter | ^~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:218:7: warning: 'sha224_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 218 | class sha224_filter : public sha_filter | ^~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:222:7: warning: 'sha256_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] 222 | class sha256_filter : public sha_filter | ^~~~~~~~~~~~~ [ 96%] Linking CXX executable ../../../test-bin/AlignTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignTest.dir/link.txt --verbose=1 [ 96%] Linking CXX executable ../../../test-bin/DumpReferenceFASTA cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/DumpReferenceFASTA.dir/link.txt --verbose=1 make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/depend [ 96%] Linking CXX executable ../../../test-bin/AlignSliceTest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignSliceTest.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/RefTest.dir/link.d CMakeFiles/RefTest.dir/RefTest.cpp.o -o ../../../test-bin/RefTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o -MF CMakeFiles/test-ngs.dir/ngstest.cpp.o.d -o CMakeFiles/test-ngs.dir/ngstest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest.cpp [ 96%] Built target RefTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/DependInfo.cmake "--color=" [ 96%] Linking CXX executable ../../../test-bin/PileupTest cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/PileupTest.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/FragTest.dir/link.d CMakeFiles/FragTest.dir/FragTest.cpp.o -o ../../../test-bin/FragTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -MF CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o.d -o CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sra.cpp [ 96%] Built target FragTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -MF CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o.d -o CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sradb.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignTest.dir/link.d CMakeFiles/AlignTest.dir/AlignTest.cpp.o -o ../../../test-bin/AlignTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target AlignTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/DependInfo.cmake "--color=" make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignSliceTest.dir/link.d CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -o ../../../test-bin/AlignSliceTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Linking CXX executable ../../../bin/ngs-pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-pileup.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/DumpReferenceFASTA.dir/link.d CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -o ../../../test-bin/DumpReferenceFASTA ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/fmt.h:24, from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = fmt::v8::basic_string_view; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {fmt::v8::basic_string_view, char [3]}]' 1692 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1693 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1694 | detail::mapped_type_constant::value>(args)...} { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'OutputIt fmt::v8::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' 1710 | return {args...}; | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/format-inl.h:74:14: required from here 74 | format_to(it, FMT_STRING("{}{}"), message, SEP); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:2915:52: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(((const fmt::v8::basic_string_view&)args#0), args#1)' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1566 | const auto& arg = arg_mapper().map(val); | ^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target AlignSliceTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/DependInfo.cmake "--color=" [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -MF CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o.d -o CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1.cpp [ 96%] Built target DumpReferenceFASTA make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -MF CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o.d -o CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_readcollection.cpp [ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -MF CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o.d -o CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -MF CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o.d -o CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_pileup.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/PileupTest.dir/link.d CMakeFiles/PileupTest.dir/PileupTest.cpp.o -o ../../../test-bin/PileupTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target PileupTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/DependInfo.cmake "--color=" [ 97%] Linking CXX executable ../../../bin/general-loader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-loader.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -MF CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o.d -o CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_reference.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-pileup.dir/link.d "CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o" "CMakeFiles/ngs-pileup.dir/main.cpp.o" -o ../../../bin/ngs-pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ngs-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ngs-pileup ngs-pileup.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3.0.9 ngs-pileup.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3 ngs-pileup make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target ngs-pileup make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Linking CXX executable ../../../test-bin/test-ngs cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs.dir/link.txt --verbose=1 [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o [ 97%] Linking CXX executable ../../../test-bin/SlowTest_FastqLoader_id2name cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -MF CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o.d -o CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_fragmentblob.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/general-loader.dir/link.d "CMakeFiles/general-loader.dir/general-loader.cpp.o" "CMakeFiles/general-loader.dir/protocol-parser.cpp.o" "CMakeFiles/general-loader.dir/database-loader.cpp.o" "CMakeFiles/general-loader.dir/main.cpp.o" -o ../../../bin/general-loader ../../../ilib/libgeneral-writer.a ../../../ilib/libloader.a -lkapp ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f general-loader.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv general-loader general-loader.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3.0.9 general-loader.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3 general-loader make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target general-loader make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -MF CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o.d -o CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_referenceblob.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.d "CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o" -o ../../../test-bin/SlowTest_FastqLoader_id2name ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target SlowTest_FastqLoader_id2name make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceWindow_Slice_Filtered::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:591:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 591 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:669:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 669 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:696:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 696 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:719:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 719 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:740:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 740 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs.dir/link.d "CMakeFiles/test-ngs.dir/ngstest.cpp.o" -o ../../../test-bin/test-ngs -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -MF CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o.d -o CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_byteblob.cpp [ 97%] Built target test-ngs make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -MF CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o.d -o CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRAtest.cpp [ 97%] Linking CXX executable ../../../test-bin/Test_Ngs_Pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Ngs_Pileup.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = std::__cxx11::basic_string; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, spdlog::stopwatch, long unsigned int}]' 1692 | data_{detail::make_arg< | ~~~~~~~~~~~~~~~~~ 1693 | is_packed, Context, | ~~~~~~~~~~~~~~~~~~~ 1694 | detail::mapped_type_constant::value>(args)...} { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'void spdlog::logger::log_(spdlog::source_loc, spdlog::level::level_enum, spdlog::string_view_t, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; spdlog::string_view_t = fmt::v8::basic_string_view]' 1710 | return {args...}; | ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:90:13: required from 'void spdlog::logger::log(spdlog::source_loc, spdlog::level::level_enum, fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 90 | log_(loc, lvl, fmt, std::forward(args)...); | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:96:12: required from 'void spdlog::logger::log(spdlog::level::level_enum, fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 96 | log(source_loc{}, lvl, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:158:12: required from 'void spdlog::logger::info(fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, spdlog::stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, spdlog::stopwatch&, long unsigned int>]' 158 | log(level::info, fmt, std::forward(args)...); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/spdlog.h:157:31: required from 'void spdlog::info(fmt::v8::format_string, Args&& ...) [with Args = {const std::__cxx11::basic_string, std::allocator >&, stopwatch&, long unsigned int}; fmt::v8::format_string = fmt::v8::basic_format_string, std::allocator >&, stopwatch&, long unsigned int>]' 157 | default_logger_raw()->info(fmt, std::forward(args)...); | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/spot_assembly.hpp:386:21: required from here 386 | spdlog::info("{} Batch insert: {:.3}, {:L} reads", batch_idx, sw, new_batch.m_spot_map->size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/logger.h:370:68: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(args#0, ((const spdlog::stopwatch&)args#1), ((const long unsigned int&)args#2))' /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] 1566 | const auto& arg = arg_mapper().map(val); | ^~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ [ 97%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqParse cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqLoader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../test-bin/SlowTest_Align_estimator cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Align_estimator.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Ngs_Pileup.dir/link.d "CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o" -o ../../../test-bin/Test_Ngs_Pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target Test_Ngs_Pileup make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqParse ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -MF CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o.d -o CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRADBtest.cpp [ 97%] Built target Test_FastqLoader_WbFastqParse make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqLoader ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -MF CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o.d -o CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1test.cpp [ 97%] Built target Test_FastqLoader_WbFastqLoader make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Align_estimator.dir/link.d CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -o ../../../test-bin/SlowTest_Align_estimator ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -MF CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o.d -o CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1PileupTest.cpp [ 97%] Built target SlowTest_Align_estimator make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -MF CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o.d -o CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/test-ngs-vdb.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3VdbeExpandSql': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] 77729 | return sqlite3StrAccumFinish(&out); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here 77625 | char zBase[100]; /* Initial working space */ | ^~~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here [ 97%] Linking CXX executable ../../../test-bin/test-byteblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-byteblob.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-byteblob.dir/link.d "CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o" -o ../../../test-bin/test-byteblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-byteblob make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/ref-variation.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Linking CXX executable ../../../test-bin/test-fragmentblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-fragmentblob.dir/link.txt --verbose=1 [ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -MF CMakeFiles/ref-variation.dir/common.cpp.o.d -o CMakeFiles/ref-variation.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-fragmentblob.dir/link.d "CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o" -o ../../../test-bin/test-fragmentblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-fragmentblob make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/var-expand.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -MF CMakeFiles/var-expand.dir/common.cpp.o.d -o CMakeFiles/var-expand.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp [ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -MF CMakeFiles/ref-variation.dir/helper.cpp.o.d -o CMakeFiles/ref-variation.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp [ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -MF CMakeFiles/var-expand.dir/helper.cpp.o.d -o CMakeFiles/var-expand.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp [ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -MF CMakeFiles/ref-variation.dir/ref-variation.cpp.o.d -o CMakeFiles/ref-variation.dir/ref-variation.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/ref-variation.cpp [ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -MF CMakeFiles/var-expand.dir/var-expand.cpp.o.d -o CMakeFiles/var-expand.dir/var-expand.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/var-expand.cpp [ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1_pileup cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_pileup.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_pileup.dir/link.d "CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o" -o ../../../test-bin/test-ngs_csra1_pileup -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_csra1_pileup make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/CMakeFiles/sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -MF CMakeFiles/sra-search.dir/main.cpp.o.d -o CMakeFiles/sra-search.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/main.cpp [ 97%] Linking CXX executable ../../../bin/var-expand cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/var-expand.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../test-bin/test-referenceblob cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-referenceblob.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1_refwin cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_refwin.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1pileup++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1pileup++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/var-expand.dir/link.d "CMakeFiles/var-expand.dir/common.cpp.o" "CMakeFiles/var-expand.dir/helper.cpp.o" "CMakeFiles/var-expand.dir/var-expand.cpp.o" -o ../../../bin/var-expand ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f var-expand.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv var-expand var-expand.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3.0.9 var-expand.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3 var-expand make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target var-expand make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -MF CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-referenceblob.dir/link.d "CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o" -o ../../../test-bin/test-referenceblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-referenceblob make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/DependInfo.cmake "--color=" /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_refwin.dir/link.d "CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o" -o ../../../test-bin/test-ngs_csra1_refwin -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build [ 97%] Built target test-ngs_csra1_refwin make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build [ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search-slow.cpp [ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-searchblock.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1pileup++.dir/link.d "CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o" -o ../../../test-bin/test-ngs_csra1pileup++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_csra1pileup++ make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -MF CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o.d -o CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats/pileup-stats.cpp [ 97%] Linking CXX executable ../../../test-bin/test-ngs_sra_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra_c++.dir/link.txt --verbose=1 [ 97%] Linking CXX executable ../../../bin/ref-variation cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/ref-variation.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra_c++.dir/link.d "CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o" -o ../../../test-bin/test-ngs_sra_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target test-ngs_sra_c++ make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Building CXX object test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/ngs/testy-the-bear\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -MF CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o.d -o CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear/testy-the-bear.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ref-variation.dir/link.d "CMakeFiles/ref-variation.dir/common.cpp.o" "CMakeFiles/ref-variation.dir/helper.cpp.o" "CMakeFiles/ref-variation.dir/ref-variation.cpp.o" -o ../../../bin/ref-variation ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ref-variation ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3.0.9 ref-variation.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3 ref-variation make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target ref-variation make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target Build-ngs-pileup [ 97%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -MF CMakeFiles/sra-search.dir/searchblock.cpp.o.d -o CMakeFiles/sra-search.dir/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp [ 97%] Linking CXX executable ../../../../test-bin/testy-the-bear cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/cmake -E cmake_link_script CMakeFiles/testy-the-bear.dir/link.txt --verbose=1 [ 98%] Linking CXX executable ../../../test-bin/test-ngs_reference cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_reference.dir/link.txt --verbose=1 [ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testy-the-bear.dir/link.d "CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o" -o ../../../../test-bin/testy-the-bear /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a ../../../../lib/libncbi-ngs-c++.a ../../../../lib/libncbi-ngs.a ../../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target testy-the-bear [ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp [ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -MF CMakeFiles/sra-search.dir/referencematchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 98%] Linking CXX executable ../../../bin/pileup-stats cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pileup-stats.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_reference.dir/link.d "CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o" -o ../../../test-bin/test-ngs_reference -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_reference [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp [ 98%] Linking CXX executable ../../../test-bin/test-ngs_sradb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb.dir/link.txt --verbose=1 [ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -MF CMakeFiles/sra-search.dir/vdb-search.cpp.o.d -o CMakeFiles/sra-search.dir/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pileup-stats.dir/link.d "CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o" -o ../../../bin/pileup-stats ../../../ilib/libgeneral-writer.a ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pileup-stats pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3.0.9 pileup-stats.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3 pileup-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target pileup-stats [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp [ 98%] Linking CXX executable ../../../../test-bin/test-searchblock cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-searchblock.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb.dir/link.d "CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o" -o ../../../test-bin/test-ngs_sradb -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target test-ngs_sradb [ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp [ 99%] Linking CXX executable ../../../test-bin/test-ngs-vdb cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-searchblock.dir/link.d "CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o" "CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o" -o ../../../../test-bin/test-searchblock ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-searchblock [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_readcollection cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_readcollection.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs-vdb.dir/link.d "CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o" -o ../../../test-bin/test-ngs-vdb ../../../ilib/libtk-version.a ../../../ilib/libngs-vdb.a -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs-vdb [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp [ 99%] Linking CXX executable ../../../../test-bin/test-general-loader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-loader.dir/link.txt --verbose=1 [ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_readcollection.dir/link.d "CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o" -o ../../../test-bin/test-ngs_csra1_readcollection -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 99%] Built target test-ngs_csra1_readcollection [ 99%] Linking CXX executable ../../../bin/sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-search.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-loader.dir/link.d "CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o" "CMakeFiles/test-general-loader.dir/testsource.cpp.o" -o ../../../../test-bin/test-general-loader ../../../../ilib/libgeneral-writer.a -lkapp -lktst ../../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-general-loader /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-search.dir/link.d "CMakeFiles/sra-search.dir/main.cpp.o" "CMakeFiles/sra-search.dir/searchblock.cpp.o" "CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/referencematchiterator.cpp.o" "CMakeFiles/sra-search.dir/vdb-search.cpp.o" -o ../../../bin/sra-search ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libtk-version.a -Wl,-Bstatic -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-search sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3.0.9 sra-search.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3 sra-search make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target sra-search make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sradb_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb_c++.dir/link.txt --verbose=1 [ 99%] Built target Build-sra-search [ 99%] Linking CXX executable ../../../../test-bin/test-sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb_c++.dir/link.d "CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o" -o ../../../test-bin/test-ngs_sradb_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sradb_c++ /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search.dir/link.d "CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-sra-search [ 99%] Linking CXX executable ../../../../test-bin/test-sra-search-slow cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search-slow.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search-slow.dir/link.d "CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search-slow ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-sra-search-slow [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sra cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra.dir/link.txt --verbose=1 [ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra.dir/link.d "CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o" -o ../../../test-bin/test-ngs_sra -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sra /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1.dir/link.d "CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o" -o ../../../test-bin/test-ngs_csra1 -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1 [ 99%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastq_dflt cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastq_dflt ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target Test_FastqLoader_WbFastq_dflt [ 99%] Linking C static library ../../ilib/libvdb-sqlite.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -P CMakeFiles/vdb-sqlite.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sqlite.dir/link.txt --verbose=1 /usr/bin/ar qc ../../ilib/libvdb-sqlite.a "CMakeFiles/vdb-sqlite.dir/sqlite3.c.o" "CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o" /usr/bin/ranlib ../../ilib/libvdb-sqlite.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target vdb-sqlite make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/depend make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/fastconv.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o -MF CMakeFiles/fastconv.dir/fastconv.c.o.d -o CMakeFiles/fastconv.dir/fastconv.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/fastconv.c [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/vdb_shell.c.o -MF CMakeFiles/vdb-sql.dir/vdb_shell.c.o.d -o CMakeFiles/vdb-sql.dir/vdb_shell.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/vdb_shell.c [ 99%] Linking C executable ../../../bin/fastconv cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastconv.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastconv.dir/link.d CMakeFiles/fastconv.dir/fastconv.c.o -o ../../../bin/fastconv /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastconv.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastconv fastconv.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3.0.9 fastconv.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastconv.3 fastconv make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target fastconv [100%] Linking C executable ../../../bin/vdb-sql cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sql.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-sql.dir/link.d "CMakeFiles/vdb-sql.dir/vdb_shell.c.o" -o ../../../bin/vdb-sql ../../../ilib/libvdb-sqlite.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-sql.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-sql vdb-sql.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3.0.9 vdb-sql.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3 vdb-sql make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target vdb-sql [100%] Linking CXX executable ../../../test-bin/test-ngs_csra1_c++ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_c++.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_c++.dir/link.d "CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o" -o ../../../test-bin/test-ngs_csra1_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target test-ngs_csra1_c++ [100%] Linking CXX executable ../../../bin/bam-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam-load.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bam-load.dir/link.d "CMakeFiles/bam-load.dir/bam-loader.c.o" "CMakeFiles/bam-load.dir/bam.c.o" "CMakeFiles/bam-load.dir/sam.c.o" "CMakeFiles/bam-load.dir/alignment-writer.c.o" "CMakeFiles/bam-load.dir/reference-writer.c.o" "CMakeFiles/bam-load.dir/sequence-writer.c.o" "CMakeFiles/bam-load.dir/loader-imp.c.o" "CMakeFiles/bam-load.dir/mem-bank.cpp.o" "CMakeFiles/bam-load.dir/low-match-count.cpp.o" -o ../../../bin/bam-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lz cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f bam-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv bam-load bam-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3.0.9 bam-load.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s bam-load.3 bam-load make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target bam-load make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/depend make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/depend make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/depend make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target Build-bam-load [100%] Built target Build-sam-dump [100%] Built target Build-fasterq-dump [100%] Built target Build-sra-sort [100%] Linking CXX executable ../../../bin/sam-analyze cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-analyze.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-analyze.dir/link.d "CMakeFiles/sam-analyze.dir/main.cpp.o" "CMakeFiles/sam-analyze.dir/sqlite3.c.o" -o ../../../bin/sam-analyze /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target sam-analyze make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' cd obj-x86_64-linux-gnu && \ ctest --force-new-ctest-process --verbose -j1 -LE online UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Parse Config file:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end test 9 Start 9: Test_NGS_Python_install 9: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-python/setup.py" "-q" "install" "--user" 9: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-python 9: Environment variables: 9: PYTHONUSERBASE=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/python 9: Test timeout computed to be: 1500 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` directly. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: EasyInstallDeprecationWarning: easy_install command is deprecated. 9: !! 9: 9: ******************************************************************************** 9: Please avoid running ``setup.py`` and ``easy_install``. 9: Instead, use pypa/build, pypa/installer or other 9: standards-based tools. 9: 9: See https://github.com/pypa/setuptools/issues/917 for details. 9: ******************************************************************************** 9: 9: !! 9: self.initialize_options() 9: build/bdist.linux-x86_64/egg/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' 9: arr = re.split('\.\s*|\-\s*|\s+', version_str) 9: zip_safe flag not set; analyzing archive contents... 1/187 Test #9: Test_NGS_Python_install ........................... Passed 0.52 sec test 15 Start 15: Ngs_MakeDB 15: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/ngs-makedb 15: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/data 15: Test timeout computed to be: 1500 15: Running 1 test case... 15: SparseFragmentBlobs (0 s) 15: 15: *** No errors detected (0 s total) 2/187 Test #15: Ngs_MakeDB ........................................ Passed 0.06 sec test 16 Start 16: Test_Ngs 16: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-ngs 16: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test 16: Test timeout computed to be: 1500 16: 16: *** No errors detected (0 s total) 3/187 Test #16: Test_Ngs .......................................... Passed 0.01 sec test 32 Start 32: GeneralWriterTest 32: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-writer 32: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test 32: Test timeout computed to be: 1500 32: CreateGw Success 32: --------------------------------- 32: addTable Success 32: --------------------------------- 32: addColumn Success 32: --------------------------------- 32: dbAddDatabase Success 32: --------------------------------- 32: dbAddTable Success 32: --------------------------------- 32: write Success 32: --------------------------------- 32: setDBMetadataNode Success 32: --------------------------------- 32: setTblMetadataNode Success 32: --------------------------------- 32: setColMetadataNode Success 32: --------------------------------- 32: setProgMsg Success 32: --------------------------------- 32: Attempting add table after endStream 32: state violation adding table 32: addTable correctly failed 32: endStream Success 32: --------------------------------- 4/187 Test #32: GeneralWriterTest ................................. Passed 0.00 sec test 33 Start 33: Ref-Variation-1.0 33: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "ref-variation" 33: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 33: Test timeout computed to be: 1500 33: ./have-access.sh: line 6: vdb-config: command not found 33: no access to repository, skipping ref-variation test... 5/187 Test #33: Ref-Variation-1.0 ................................. Passed 0.00 sec test 34 Start 34: Var-Expand-1.0 34: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "var-expand" 34: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 34: Test timeout computed to be: 1500 34: ./have-access.sh: line 6: vdb-config: command not found 34: no access to repository, skipping var-expand test... 6/187 Test #34: Var-Expand-1.0 .................................... Passed 0.00 sec test 35 Start 35: SearchBlockWhiteBox 35: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-searchblock 35: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test 35: Test timeout computed to be: 1500 35: Running 8 test cases... 35: FgrepDumb (0 s) 35: SearchFgrepBoyerMoore (0 s) 35: SearchFgrepAho (0 s) 35: SearchAgrepDP (0 s) 35: SearchNucStrstr_NoExpr_NoCoords (0 s) 35: SearchNucStrstr_NoExpr_Coords_NotSupported (0 s) 35: SearchNucStrstr_Expr_Coords (0 s) 35: SearchSmithWaterman_Coords_NotSupported (0 s) 35: 35: *** No errors detected (0 s total) 7/187 Test #35: SearchBlockWhiteBox ............................... Passed 0.01 sec test 38 Start 38: SraSearch-1.0-h 38: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.0-h" "--args" "-h" 38: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 38: Test timeout computed to be: 1500 38: running test case 1.0-h... passed 8/187 Test #38: SraSearch-1.0-h ................................... Passed 0.20 sec test 39 Start 39: SraSearch-1.1-help 39: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "1.1-help" "--args" "--help" 39: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 39: Test timeout computed to be: 1500 39: running test case 1.1-help... passed 9/187 Test #39: SraSearch-1.1-help ................................ Passed 0.10 sec test 40 Start 40: SraSearch-1.2-V 40: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search -V" "3.0.9" 40: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 40: Test timeout computed to be: 1500 40: sra-search : 3.0.9 10/187 Test #40: SraSearch-1.2-V ................................... Passed 0.01 sec test 41 Start 41: SraSearch-1.3-version 41: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/execandgrep.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search --version" "3.0.9" 41: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 41: Test timeout computed to be: 1500 41: sra-search : 3.0.9 11/187 Test #41: SraSearch-1.3-version ............................. Passed 0.01 sec test 42 Start 42: SraSearch-2.0-no-args 42: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.0-no-args" "--rc" "3" 42: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 42: Test timeout computed to be: 1500 42: running test case 2.0-no-args... passed 12/187 Test #42: SraSearch-2.0-no-args ............................. Passed 0.84 sec test 43 Start 43: SraSearch-2.1-no-run 43: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.1-no-run" "--rc" "3" "--args" "AGCT" 43: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 43: Test timeout computed to be: 1500 43: running test case 2.1-no-run... passed 13/187 Test #43: SraSearch-2.1-no-run .............................. Passed 0.14 sec test 44 Start 44: SraSearch-2.2-missing-algorithm 44: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.2-missing-algorithm" "--rc" "3" "--args" "AGCT SRR000001 -a" 44: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 44: Test timeout computed to be: 1500 44: running test case 2.2-missing-algorithm... passed 14/187 Test #44: SraSearch-2.2-missing-algorithm ................... Passed 0.04 sec test 45 Start 45: SraSearch-2.3-bad-algorithm 45: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "2.3-bad-algorithm" "--rc" "3" "--args" "--algorithm bad AGCT SRR000001" 45: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 45: Test timeout computed to be: 1500 45: running test case 2.3-bad-algorithm... passed 15/187 Test #45: SraSearch-2.3-bad-algorithm ....................... Passed 0.04 sec test 61 Start 61: SraSearch-5.1-run-not-nucstrstr-with-expression 61: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "5.1-run-not-nucstrstr-with-expression" "--args" "AAAAAAACCCCCCCAAAAAAACCCCCCC\|\|AGCTAGCTAGCT --algorithm FgrepStandard --expression SRR000001" "--rc" "3" 61: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 61: Test timeout computed to be: 1500 61: running test case 5.1-run-not-nucstrstr-with-expression... passed 16/187 Test #61: SraSearch-5.1-run-not-nucstrstr-with-expression ... Passed 0.04 sec test 62 Start 62: SraSearch-6.0.1-imperfect-match-no-arg 62: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.1-imperfect-match-no-arg" "--args" "AGCTAGCTAGCT SRR000001 -S" "--rc" "3" 62: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 62: Test timeout computed to be: 1500 62: running test case 6.0.1-imperfect-match-no-arg... passed 17/187 Test #62: SraSearch-6.0.1-imperfect-match-no-arg ............ Passed 0.02 sec test 63 Start 63: SraSearch-6.0.2-imperfect-match-bad-arg 63: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.2-imperfect-match-bad-arg" "--args" "AGCTAGCTAGCT SRR000001 -S qq" "--rc" "3" 63: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 63: Test timeout computed to be: 1500 63: running test case 6.0.2-imperfect-match-bad-arg... passed 18/187 Test #63: SraSearch-6.0.2-imperfect-match-bad-arg ........... Passed 0.03 sec test 64 Start 64: SraSearch-6.0.3-imperfect-match-default 64: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.0.3-imperfect-match-default" "--args" "AGCTAGCTAGCT -S 90 SRR000001" "--rc" "3" 64: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 64: Test timeout computed to be: 1500 64: running test case 6.0.3-imperfect-match-default... passed 19/187 Test #64: SraSearch-6.0.3-imperfect-match-default ........... Passed 0.02 sec test 65 Start 65: SraSearch-6.1-imperfect-match-fgrep-standard 65: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.1-imperfect-match-fgrep-standard" "--args" "AGCTAGCTAGCT --score 90 -a FgrepStandard SRR000001" "--rc" "3" 65: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 65: Test timeout computed to be: 1500 65: running test case 6.1-imperfect-match-fgrep-standard... passed 20/187 Test #65: SraSearch-6.1-imperfect-match-fgrep-standard ...... Passed 0.02 sec test 66 Start 66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore 66: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.2-imperfect-match-fgrep-boyer-moore" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepBoyerMoore SRR000001" "--rc" "3" 66: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 66: Test timeout computed to be: 1500 66: running test case 6.2-imperfect-match-fgrep-boyer-moore... passed 21/187 Test #66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore ... Passed 0.02 sec test 67 Start 67: SraSearch-6.3-imperfect-match-fgrep-aho 67: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.3-imperfect-match-fgrep-aho" "--args" "AGCTAGCTAGCT --score 90 --algorithm FgrepAho SRR000001" "--rc" "3" 67: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 67: Test timeout computed to be: 1500 67: running test case 6.3-imperfect-match-fgrep-aho... passed 22/187 Test #67: SraSearch-6.3-imperfect-match-fgrep-aho ........... Passed 0.02 sec test 72 Start 72: SraSearch-6.8-imperfect-match-nucstrstr 72: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "6.8-imperfect-match-nucstrstr" "--args" "AGCTAGCTAGCT --score 90 --algorithm NucStrstr SRR000001" "--rc" "3" 72: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 72: Test timeout computed to be: 1500 72: running test case 6.8-imperfect-match-nucstrstr... passed 23/187 Test #72: SraSearch-6.8-imperfect-match-nucstrstr ........... Passed 0.02 sec test 74 Start 74: SraSearch-7.0.1-threads-no-arg 74: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.1-threads-no-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 -T" 74: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 74: Test timeout computed to be: 1500 74: running test case 7.0.1-threads-no-arg... passed 24/187 Test #74: SraSearch-7.0.1-threads-no-arg .................... Passed 0.04 sec test 75 Start 75: SraSearch-7.0.2-threads-bad-arg 75: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "7.0.2-threads-bad-arg" "--rc" "3" "--args" "AGCTAGCTAGCT SRR600094 SRR600095 --threads -1" 75: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 75: Test timeout computed to be: 1500 75: running test case 7.0.2-threads-bad-arg... passed 25/187 Test #75: SraSearch-7.0.2-threads-bad-arg ................... Passed 0.04 sec test 80 Start 80: SlowTest_SraSearch-8.0-nothing-found 80: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "8.0-nothing-found" "--rc" "3" "--args" "TTTTTTTTAAAAAAACCCC -T 1 SRR000001" 80: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 80: Test timeout computed to be: 1500 80: running test case 8.0-nothing-found... passed 26/187 Test #80: SlowTest_SraSearch-8.0-nothing-found .............. Passed 1.08 sec test 84 Start 84: SraSearch-9.3-reference-expression 84: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-search" "9.3-reference-expression" "--args" "ACGTAGGGTCC SRR600094 --reference --expression" "--rc" "3" 84: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 84: Test timeout computed to be: 1500 84: running test case 9.3-reference-expression... passed 27/187 Test #84: SraSearch-9.3-reference-expression ................ Passed 0.04 sec test 86 Start 86: GeneralLoaderWhiteBox 86: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-general-loader 86: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 86: Test timeout computed to be: 1500 86: Unpacked protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) 86: BadSignature (0 s) 86: BadEndianness (0 s) 86: ReverseEndianness (0 s) 86: LaterVersion (0 s) 86: BadSchemaFileName (0 s) 86: BadSchemaFileName_Long (0 s) 86: BadSchemaName (0 s) 86: BadSchemaName_Long (0 s) 86: BadTableName (0 s) 86: BadTableName_Long (0 s) 86: DuplicateTableId (0 s) 86: BadColumnName (0 s) 86: BadTableId (0 s) 86: DuplicateColumnName (0 s) 86: DuplicateColumnId (0 s) 86: NoOpenStreamEvent (0 s) 86: NoCloseStreamEvent (0 s) 86: NoColumns (0 s) 86: SoftwareName (0 s) 86: SoftwareName_BadVersion (0 s) 86: DBAddDatabase (0 s) 86: DBAddSubDatabase (0 s) 86: DBAddTable (0 s) 86: DBAddTableToSubDb (0 s) 86: DBMetadataNode (0 s) 86: SubDBMetadataNode (0 s) 86: TblMetadataNode (0 s) 86: ColMetadataNode (0 s) 86: NoData (0 s) 86: Chunk_BadColumnId (0 s) 86: WriteNoCommit (0 s) 86: CommitBadTableId (0 s) 86: OneColumnOneCellOneChunk (0 s) 86: OneColumnOneCellOneChunk_Long (0 s) 86: OneColumnOneCellManyChunks (0 s) 86: IntegerCompression_MinimumCompression (0 s) 86: IntegerCompression_MaximumCompression (0 s) 86: IntegerCompression_MultipleValues (0 s) 86: OneColumnDefaultNoWrite (0 s) 86: OneColumnDefaultNoWrite_Long (0 s) 86: MoveAhead (0 s) 86: OneColumnDefaultOverwite (0 s) 86: OneColumnChangeDefault (0 s) 86: OneColumnDataAndDefaultsMixed (0 s) 86: TwoColumnsFullRow (0 s) 86: TwoColumnsIncompleteRow (0 s) 86: TwoColumnsPartialRowWithDefaults (0 s) 86: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 86: EmptyDefault_String (0 s) 86: EmptyDefault_Int (0 s) 86: MultipleTables_Multiple_Columns_MultipleRows (0 s) 86: AdditionalSchemaIncludePaths_Single (0 s) 86: AdditionalSchemaIncludePaths_Multiple (0 s) 86: AdditionalSchemaFiles_Single (0 s) 86: AdditionalSchemaFiles_Multiple (0 s) 86: ErrorMessage (0 s) 86: ErrorMessage_Long (0 s) 86: LogMessage (0 s) 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: 86: *** No errors detected (0 s total) 86: Packed protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) 86: BadSignature (0 s) 86: BadEndianness (0 s) 86: ReverseEndianness (0 s) 86: LaterVersion (0 s) 86: BadSchemaFileName (0 s) 86: BadSchemaFileName_Long (0 s) 86: BadSchemaName (0 s) 86: BadSchemaName_Long (0 s) 86: BadTableName (0 s) 86: BadTableName_Long (0 s) 86: DuplicateTableId (0 s) 86: BadColumnName (0 s) 86: BadTableId (0 s) 86: DuplicateColumnName (0 s) 86: DuplicateColumnId (0 s) 86: NoOpenStreamEvent (0 s) 86: NoCloseStreamEvent (0 s) 86: NoColumns (0 s) 86: SoftwareName (0 s) 86: SoftwareName_BadVersion (0 s) 86: DBAddDatabase (0 s) 86: DBAddSubDatabase (0 s) 86: DBAddTable (0 s) 86: DBAddTableToSubDb (0 s) 86: DBMetadataNode (0 s) 86: SubDBMetadataNode (0 s) 86: TblMetadataNode (0 s) 86: ColMetadataNode (0 s) 86: NoData (0 s) 86: Chunk_BadColumnId (0 s) 86: WriteNoCommit (0 s) 86: CommitBadTableId (0 s) 86: OneColumnOneCellOneChunk (0 s) 86: OneColumnOneCellOneChunk_Long (0 s) 86: OneColumnOneCellManyChunks (0 s) 86: IntegerCompression_MinimumCompression (0 s) 86: IntegerCompression_MaximumCompression (0 s) 86: IntegerCompression_MultipleValues (0 s) 86: OneColumnDefaultNoWrite (0 s) 86: OneColumnDefaultNoWrite_Long (0 s) 86: MoveAhead (0 s) 86: OneColumnDefaultOverwite (0 s) 86: OneColumnChangeDefault (0 s) 86: OneColumnDataAndDefaultsMixed (0 s) 86: TwoColumnsFullRow (0 s) 86: TwoColumnsIncompleteRow (0 s) 86: TwoColumnsPartialRowWithDefaults (0 s) 86: TwoColumnsPartialRowWithDefaultsAndOverride (0 s) 86: EmptyDefault_String (0 s) 86: EmptyDefault_Int (0 s) 86: MultipleTables_Multiple_Columns_MultipleRows (0 s) 86: AdditionalSchemaIncludePaths_Single (0 s) 86: AdditionalSchemaIncludePaths_Multiple (0 s) 86: AdditionalSchemaFiles_Single (0 s) 86: AdditionalSchemaFiles_Multiple (0 s) 86: ErrorMessage (0 s) 86: ErrorMessage_Long (0 s) 86: LogMessage (0 s) 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: 86: *** No errors detected (0 s total) 28/187 Test #86: GeneralLoaderWhiteBox ............................. Passed 0.81 sec test 87 Start 87: GWDumper 87: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-gw-dumper 87: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test 87: Test timeout computed to be: 1500 29/187 Test #87: GWDumper .......................................... Passed 0.01 sec test 88 Start 88: makeinputs 88: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/makeinputs 88: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 88: Test timeout computed to be: 1500 30/187 Test #88: makeinputs ........................................ Passed 0.01 sec test 89 Start 89: GeneralLoader-1.0-Basic-Unpacked 89: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1" "0" "-I/usr/include/ncbi-vdb" 89: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 89: Test timeout computed to be: 1500 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1 0 -I/usr/include/ncbi-vdb 89: running test case 1 89: cat input/1.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stderr 89: Load succeeded, dumping and matching stdout 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stderr 31/187 Test #89: GeneralLoader-1.0-Basic-Unpacked .................. Passed 0.44 sec test 90 Start 90: GeneralLoader-1.1-Basic-Packed 90: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1packed" "0" "-I/usr/include/ncbi-vdb" 90: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 90: Test timeout computed to be: 1500 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1packed 0 -I/usr/include/ncbi-vdb 90: running test case 1packed 90: cat input/1packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stderr 90: Load succeeded, dumping and matching stdout 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stderr 32/187 Test #90: GeneralLoader-1.1-Basic-Packed .................... Passed 0.45 sec test 91 Start 91: GeneralLoader-1.2-TargetDbOverride 91: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1override" "0" "-I/usr/include/ncbi-vdb --target actual/1override/db" 91: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 91: Test timeout computed to be: 1500 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1override 0 -I/usr/include/ncbi-vdb --target actual/1override/db 91: running test case 1override 91: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb --target actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 91: Load succeeded, dumping and matching stdout 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr 33/187 Test #91: GeneralLoader-1.2-TargetDbOverride ................ Passed 0.70 sec test 92 Start 92: GeneralLoader-1.3-TargetDbOverrideShorthand 92: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "1override" "0" "-I/usr/include/ncbi-vdb -T actual/1override/db" 92: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 92: Test timeout computed to be: 1500 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 1override 0 -I/usr/include/ncbi-vdb -T actual/1override/db 92: running test case 1override 92: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -T actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 92: Load succeeded, dumping and matching stdout 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr 34/187 Test #92: GeneralLoader-1.3-TargetDbOverrideShorthand ....... Passed 1.75 sec test 93 Start 93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked 93: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "2" "3" "-I/usr/include/ncbi-vdb -L=err" 93: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 93: Test timeout computed to be: 1500 93: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 2 3 -I/usr/include/ncbi-vdb -L=err 93: running test case 2 93: cat input/2.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stderr 93: Load failed as expected, matching stderr 35/187 Test #93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked ...... Passed 0.68 sec test 94 Start 94: GeneralLoader-2.1-ErrorMessageEvent-Packed 94: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "2packed" "3" "-I/usr/include/ncbi-vdb -L=err" 94: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 94: Test timeout computed to be: 1500 94: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 2packed 3 -I/usr/include/ncbi-vdb -L=err 94: running test case 2packed 94: cat input/2packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stderr 94: Load failed as expected, matching stderr 36/187 Test #94: GeneralLoader-2.1-ErrorMessageEvent-Packed ........ Passed 0.98 sec test 95 Start 95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked 95: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "3" "0" "-I/usr/include/ncbi-vdb" 95: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 95: Test timeout computed to be: 1500 95: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 3 0 -I/usr/include/ncbi-vdb 95: running test case 3 95: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 95: Load succeeded, dumping and matching stdout 95: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr 37/187 Test #95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked ..... Passed 0.46 sec test 96 Start 96: GeneralLoader-3.1-EmptyDefaultValues-Packed 96: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "3" "0" "-I/usr/include/ncbi-vdb" 96: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 96: Test timeout computed to be: 1500 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 3 0 -I/usr/include/ncbi-vdb 96: running test case 3 96: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 96: Load succeeded, dumping and matching stdout 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr 38/187 Test #96: GeneralLoader-3.1-EmptyDefaultValues-Packed ....... Passed 0.46 sec test 97 Start 97: GeneralLoader-4.0-MoveAheadEvent-Unpacked 97: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "4" "0" "-I/usr/include/ncbi-vdb" 97: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 97: Test timeout computed to be: 1500 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 4 0 -I/usr/include/ncbi-vdb 97: running test case 4 97: cat input/4.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stderr 97: Load succeeded, dumping and matching stdout 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stderr 39/187 Test #97: GeneralLoader-4.0-MoveAheadEvent-Unpacked ......... Passed 0.46 sec test 98 Start 98: GeneralLoader-4.1-MoveAheadEvent-Packed 98: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "4packed" "0" "-I/usr/include/ncbi-vdb" 98: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 98: Test timeout computed to be: 1500 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 4packed 0 -I/usr/include/ncbi-vdb 98: running test case 4packed 98: cat input/4packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stderr 98: Load succeeded, dumping and matching stdout 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stderr 40/187 Test #98: GeneralLoader-4.1-MoveAheadEvent-Packed ........... Passed 0.46 sec test 99 Start 99: GeneralLoader-5.0-IntegerConversion 99: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "5packed" "0" "-I/usr/include/ncbi-vdb" 99: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 99: Test timeout computed to be: 1500 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 5packed 0 -I/usr/include/ncbi-vdb 99: running test case 5packed 99: cat input/5packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stderr 99: Load succeeded, dumping and matching stdout 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stderr 41/187 Test #99: GeneralLoader-5.0-IntegerConversion ............... Passed 0.46 sec test 100 Start 100: GeneralLoader-6.0-SoftwareName-Unpacked 100: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "6" "0" "-L=info -I/usr/include/ncbi-vdb" "SOFTWARE/formatter" 100: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 100: Test timeout computed to be: 1500 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 6 0 -L=info -I/usr/include/ncbi-vdb SOFTWARE/formatter 100: running test case 6 100: cat input/6.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stderr 100: Load succeeded, dumping and matching stdout 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stderr 42/187 Test #100: GeneralLoader-6.0-SoftwareName-Unpacked ........... Passed 0.30 sec test 101 Start 101: GeneralLoader-6.1-SoftwareName-Packed 101: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test" "6packed" "0" "-L=info -I/usr/include/ncbi-vdb" "SOFTWARE/formatter" 101: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 101: Test timeout computed to be: 1500 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/runtestcase.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 6packed 0 -L=info -I/usr/include/ncbi-vdb SOFTWARE/formatter 101: running test case 6packed 101: cat input/6packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stderr 101: Load succeeded, dumping and matching stdout 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stderr 43/187 Test #101: GeneralLoader-6.1-SoftwareName-Packed ............. Passed 0.26 sec test 102 Start 102: bio-end-makeinputs 102: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/bio-end-makeinputs 102: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 102: Test timeout computed to be: 1500 44/187 Test #102: bio-end-makeinputs ................................ Passed 0.01 sec test 103 Start 103: BioEnd-Excl-1 103: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/usr/include/ncbi-vdb" "-L=debug" 103: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 103: Test timeout computed to be: 1500 103: running test bio-end:excl-1 45/187 Test #103: BioEnd-Excl-1 ..................................... Passed 0.26 sec test 104 Start 104: BioEnd-Excl-2 104: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-2" "0" "n" "-I/usr/include/ncbi-vdb" 104: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 104: Test timeout computed to be: 1500 104: running test bio-end:excl-2 46/187 Test #104: BioEnd-Excl-2 ..................................... Passed 0.23 sec test 105 Start 105: BioEnd-Excl-3 105: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-3" "0" "n" "-I/usr/include/ncbi-vdb" 105: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 105: Test timeout computed to be: 1500 105: running test bio-end:excl-3 47/187 Test #105: BioEnd-Excl-3 ..................................... Passed 0.23 sec test 106 Start 106: BioEnd-Excl-4 106: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-4" "0" "n" "-I/usr/include/ncbi-vdb" 106: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 106: Test timeout computed to be: 1500 106: running test bio-end:excl-4 48/187 Test #106: BioEnd-Excl-4 ..................................... Passed 0.23 sec test 107 Start 107: BioEnd-Incl-1 107: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "incl-1" "0" "n" "-I/usr/include/ncbi-vdb" 107: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 107: Test timeout computed to be: 1500 107: running test bio-end:incl-1 49/187 Test #107: BioEnd-Incl-1 ..................................... Passed 0.24 sec test 108 Start 108: IdxText-CI-1 108: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "bio-end" "excl-1" "0" "n" "-I/usr/include/ncbi-vdb" 108: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 108: Test timeout computed to be: 1500 108: running test bio-end:excl-1 50/187 Test #108: IdxText-CI-1 ...................................... Passed 0.26 sec test 109 Start 109: idx-text-makeinputs 109: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-makeinputs 109: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 109: Test timeout computed to be: 1500 51/187 Test #109: idx-text-makeinputs ............................... Passed 0.00 sec test 110 Start 110: IdxText-ci-1 110: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-1" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 110: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 110: Test timeout computed to be: 1500 110: running test idx-text:ci-1 52/187 Test #110: IdxText-ci-1 ...................................... Passed 0.25 sec test 111 Start 111: IdxText-ci-2 111: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-2" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 111: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 111: Test timeout computed to be: 1500 111: running test idx-text:ci-2 53/187 Test #111: IdxText-ci-2 ...................................... Passed 0.22 sec test 112 Start 112: IdxText-ci-3 112: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-3" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 112: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 112: Test timeout computed to be: 1500 112: running test idx-text:ci-3 54/187 Test #112: IdxText-ci-3 ...................................... Passed 0.26 sec test 113 Start 113: IdxText-ci-4 113: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-4" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 113: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 113: Test timeout computed to be: 1500 113: running test idx-text:ci-4 55/187 Test #113: IdxText-ci-4 ...................................... Passed 0.23 sec test 114 Start 114: IdxText-ci-5 114: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "ci-5" "0" "n" "-I/usr/include/ncbi-vdb" 114: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 114: Test timeout computed to be: 1500 114: running test idx-text:ci-5 56/187 Test #114: IdxText-ci-5 ...................................... Passed 0.17 sec test 115 Start 115: IdxText-cs-1 115: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-1" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 115: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 115: Test timeout computed to be: 1500 115: running test idx-text:cs-1 57/187 Test #115: IdxText-cs-1 ...................................... Passed 0.36 sec test 116 Start 116: IdxText-cs-2 116: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-2" "0" "y" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/idx-text-checklookup" "-I/usr/include/ncbi-vdb" 116: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 116: Test timeout computed to be: 1500 116: running test idx-text:cs-2 58/187 Test #116: IdxText-cs-2 ...................................... Passed 0.25 sec test 117 Start 117: IdxText-cs-3 117: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema" "idx-text" "cs-3" "0" "n" "-I/usr/include/ncbi-vdb" 117: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 117: Test timeout computed to be: 1500 117: running test idx-text:cs-3 59/187 Test #117: IdxText-cs-3 ...................................... Passed 0.18 sec test 118 Start 118: PileupStats-Version 118: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -V | grep --quiet `head -n 1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers`" 118: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 118: Test timeout computed to be: 1500 60/187 Test #118: PileupStats-Version ............................... Passed 0.01 sec test 119 Start 119: PileupStats-Help 119: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -h | grep --quiet Usage" 119: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 119: Test timeout computed to be: 1500 61/187 Test #119: PileupStats-Help .................................. Passed 0.01 sec test 120 Start 120: PileupStats-NoArgs 120: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats; if [ $? == 0 ] ; then exit 1; fi;" 120: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 120: Test timeout computed to be: 1500 120: 120: Usage: 120: pileup-stats [options] 120: 120: Options: 120: -o|--output-file file for output 120: (default pipe to stdout) 120: -r|--remote-db name of remote database to create 120: (default .pileup_stat) 120: -x|--depth-cutoff cutoff for depth <= value (default 1) 120: -e|--event-cutoff cutoff for number of events > value (default 1) 120: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 120: -a|--align-category the types of alignments to pile up: 120: { primary, secondary, all } (default primary) 120: --buffer-size bytes size of output pipe buffer - default 32K bytes 120: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 120: -h|--help output brief explanation of the program 120: -v|--verbose increase the verbosity of the program. 120: -V|--version display the version of the program then quit. 120: use multiple times for more verbosity. 120: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 120: 120: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 120: 62/187 Test #120: PileupStats-NoArgs ................................ Passed 0.01 sec test 121 Start 121: PileupStats-IgnoreArgs-L 121: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -L 1; if [ $? == 0 ] ; then exit 1; fi;" 121: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 121: Test timeout computed to be: 1500 121: 121: Usage: 121: pileup-stats [options] 121: 121: Options: 121: -o|--output-file file for output 121: (default pipe to stdout) 121: -r|--remote-db name of remote database to create 121: (default .pileup_stat) 121: -x|--depth-cutoff cutoff for depth <= value (default 1) 121: -e|--event-cutoff cutoff for number of events > value (default 1) 121: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 121: -a|--align-category the types of alignments to pile up: 121: { primary, secondary, all } (default primary) 121: --buffer-size bytes size of output pipe buffer - default 32K bytes 121: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 121: -h|--help output brief explanation of the program 121: -v|--verbose increase the verbosity of the program. 121: -V|--version display the version of the program then quit. 121: use multiple times for more verbosity. 121: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 121: 121: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 121: 63/187 Test #121: PileupStats-IgnoreArgs-L .......................... Passed 0.01 sec test 122 Start 122: PileupStats-IgnoreArgs-z 122: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats -z ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 122: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 122: Test timeout computed to be: 1500 122: 122: Usage: 122: pileup-stats [options] 122: 122: Options: 122: -o|--output-file file for output 122: (default pipe to stdout) 122: -r|--remote-db name of remote database to create 122: (default .pileup_stat) 122: -x|--depth-cutoff cutoff for depth <= value (default 1) 122: -e|--event-cutoff cutoff for number of events > value (default 1) 122: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 122: -a|--align-category the types of alignments to pile up: 122: { primary, secondary, all } (default primary) 122: --buffer-size bytes size of output pipe buffer - default 32K bytes 122: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 122: -h|--help output brief explanation of the program 122: -v|--verbose increase the verbosity of the program. 122: -V|--version display the version of the program then quit. 122: use multiple times for more verbosity. 122: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 122: 122: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 122: 64/187 Test #122: PileupStats-IgnoreArgs-z .......................... Passed 0.01 sec test 123 Start 123: PileupStats-IgnoreArgs-loglevel 123: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --log-level 1; if [ $? == 0 ] ; then exit 1; fi;" 123: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 123: Test timeout computed to be: 1500 123: 123: Usage: 123: pileup-stats [options] 123: 123: Options: 123: -o|--output-file file for output 123: (default pipe to stdout) 123: -r|--remote-db name of remote database to create 123: (default .pileup_stat) 123: -x|--depth-cutoff cutoff for depth <= value (default 1) 123: -e|--event-cutoff cutoff for number of events > value (default 1) 123: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 123: -a|--align-category the types of alignments to pile up: 123: { primary, secondary, all } (default primary) 123: --buffer-size bytes size of output pipe buffer - default 32K bytes 123: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 123: -h|--help output brief explanation of the program 123: -v|--verbose increase the verbosity of the program. 123: -V|--version display the version of the program then quit. 123: use multiple times for more verbosity. 123: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 123: 123: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 123: 65/187 Test #123: PileupStats-IgnoreArgs-loglevel ................... Passed 0.01 sec test 124 Start 124: PileupStats-IgnoreArgs-xmllog 124: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 124: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 124: Test timeout computed to be: 1500 124: 124: Usage: 124: pileup-stats [options] 124: 124: Options: 124: -o|--output-file file for output 124: (default pipe to stdout) 124: -r|--remote-db name of remote database to create 124: (default .pileup_stat) 124: -x|--depth-cutoff cutoff for depth <= value (default 1) 124: -e|--event-cutoff cutoff for number of events > value (default 1) 124: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 124: -a|--align-category the types of alignments to pile up: 124: { primary, secondary, all } (default primary) 124: --buffer-size bytes size of output pipe buffer - default 32K bytes 124: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 124: -h|--help output brief explanation of the program 124: -v|--verbose increase the verbosity of the program. 124: -V|--version display the version of the program then quit. 124: use multiple times for more verbosity. 124: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 124: 124: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 124: 66/187 Test #124: PileupStats-IgnoreArgs-xmllog ..................... Passed 0.01 sec test 125 Start 125: PileupStats-IgnoreArgs-xmllogfd 125: Test command: /usr/bin/sh "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats --xml-log-fd ignore.txt; if [ $? == 0 ] ; then exit 1; fi;" 125: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/test 125: Test timeout computed to be: 1500 125: 125: Usage: 125: pileup-stats [options] 125: 125: Options: 125: -o|--output-file file for output 125: (default pipe to stdout) 125: -r|--remote-db name of remote database to create 125: (default .pileup_stat) 125: -x|--depth-cutoff cutoff for depth <= value (default 1) 125: -e|--event-cutoff cutoff for number of events > value (default 1) 125: -p|--num-significant-bits number of significant bits for depth and counts to store (default 4) 125: -a|--align-category the types of alignments to pile up: 125: { primary, secondary, all } (default primary) 125: --buffer-size bytes size of output pipe buffer - default 32K bytes 125: -U|--unpack-integer don't pack integers in output pipe - uses more bandwidth 125: -h|--help output brief explanation of the program 125: -v|--verbose increase the verbosity of the program. 125: -V|--version display the version of the program then quit. 125: use multiple times for more verbosity. 125: --log-stderr log via stderr rather than general-writer API (default - general-writer API) 125: 125: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 125: 67/187 Test #125: PileupStats-IgnoreArgs-xmllogfd ................... Passed 0.01 sec test 126 Start 126: test-vdb 126: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb 126: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb 126: Test timeout computed to be: 1500 126: Running 38 test cases... 126: Error_RcToString (0 s) 126: Error_RcToString_English (0 s) 126: Manager_Construction (0 s) 126: RC 1426393646 thrown by ./libs/inc/vdb.hpp:239 126: Manager_Schema_Bad (0 s) 126: Manager_Schema_Good (0 s) 126: Manager_Schema_Include (0 s) 126: Manager_SchemaFromFile (0 s) 126: Manager_SchemaFromFile_Bad (0 s) 126: RC 2615477144 thrown by ./libs/inc/vdb.hpp:621 126: Manager_Database_Bad (0 s) 126: Manager_OpenDatabase_Good (0 s) 126: RC 1273301772 thrown by ./libs/inc/vdb.hpp:628 126: Manager_OpenTable_Bad (0 s) 126: Manager_OpenTable_Good (0 s) 126: Manager_PathType_Table (0 s) 126: Manager_PathType_Database (0 s) 126: Manager_PathType_Invalid (1 s) 126: RC 807538648 thrown by ./libs/inc/vdb.hpp:551 126: Database_Table_Bad (0 s) 126: Database_Table_Good (0 s) 126: Database_hasTable_Yes (0 s) 126: Database_hasTable_No (0 s) 126: Table_Default (0 s) 126: Table_Assign (0 s) 126: RC 1367638680 thrown by ./libs/inc/vdb.hpp:437 126: Table_ReadCursor1_BadColumn (0 s) 126: Table_ReadCursor1 (0 s) 126: RC 1367638680 thrown by ./libs/inc/vdb.hpp:470 126: Table_ReadCursor2_BadColumn (0 s) 126: Table_ReadCursor2 (0 s) 126: Table_PhysicaColumns (0 s) 126: Cursor_Columns (0 s) 126: Cursor_RowRange (0 s) 126: Cursor_ReadOne (0 s) 126: Cursor_ReadN (0 s) 126: Cursor_ForEach (0 s) 126: Cursor_ForEachWithFilter (0 s) 126: Cursor_IsStaticColumn_True (0 s) 126: Cursor_IsStaticColumn_False (0 s) 126: RawData_asVector_badCast (0 s) 126: RawData_asVector (0 s) 126: RawData_value_badCast (0 s) 126: RawData_value (0 s) 126: 126: *** No errors detected (2 s total) 68/187 Test #126: test-vdb .......................................... Passed 2.56 sec test 127 Start 127: Test_NgsJava_lib_load 127: Test command: /usr/bin/java "-cp" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar" "-Dvdb.System.loadLibrary=1" "-Dvdb.log=FINEST" "org.junit.runner.JUnitCore" "gov.nih.nlm.ncbi.ngs.ngs_test_lib_load" 127: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java 127: Test timeout computed to be: 1500 127: JUnit version 4.11 127: ......... 127: Time: 0.071 127: 127: OK (9 tests) 127: 69/187 Test #127: Test_NgsJava_lib_load ............................. Passed 0.30 sec test 131 Start 131: Test_Align_Info 131: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info "-h" 131: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info 131: Test timeout computed to be: 1500 131: Usage: 131: align-info [options] 131: 131: Summary: 131: Print database alignment information 131: 131: Parameters: 131: db-path Path to the database 131: 131: Options: 131: -a|--all print all information 131: -r|--ref print refseq information [default] 131: -b|--bam print bam header (if present) 131: -Q|--qual print quality statistics (if present) 131: -H|--headers print headers for output blocks 131: --ngc path to ngc file 131: 131: -h|--help Output brief explanation for the program. 131: -V|--version Display the version of the program then 131: quit. 131: -L|--log-level Logging level as number or enum string. One 131: of (fatal|sys|int|err|warn|info|debug) or 131: (0-6) Current/default is warn. 131: -v|--verbose Increase the verbosity of the program 131: status messages. Use multiple times for more 131: verbosity. Negates quiet. 131: -q|--quiet Turn off all status messages for the 131: program. Negated by verbose. 131: --option-file Read more options and parameters from the 131: file. 131: 131: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info : 3.0.9 131: 70/187 Test #131: Test_Align_Info ................................... Passed 0.01 sec test 132 Start 132: Test_Drivertool_BuildVersion 132: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_BuildVersion 132: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 132: Test timeout computed to be: 1500 132: Test_Version passed. 71/187 Test #132: Test_Drivertool_BuildVersion ...................... Passed 0.00 sec test 133 Start 133: Test_Drivertool_FilePath 133: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_FilePath 133: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 133: Test timeout computed to be: 1500 133: Running 27 test cases... 133: DefaultConstruct (0 s) 133: Construct_Cstring (0 s) 133: Construct_String (0 s) 133: CopyConstruct_Empty (0 s) 133: CopyConstruct (0 s) 133: Assign_Empty (0 s) 133: Assign (0 s) 133: Copy (0 s) 133: Split (0 s) 133: BaseName (0 s) 133: Append (0 s) 133: RemoveSuffix_0 (0 s) 133: RemoveSuffix (0 s) 133: RemoveSuffix_Ext (0 s) 133: RemoveSuffix_Oversized (0 s) 133: SimpleName (0 s) 133: CWD (0 s) 133: Exists (0 s) 133: CWD_Append (0 s) 133: Exists_Static (0 s) 133: Readable (0 s) 133: IsSame_Directory (0 s) 133: NotIsSame_Directory (0 s) 133: IsSame_File (0 s) 133: NotIsSame_File (0 s) 133: Current_Executable (0 s) 133: Executable_Yes (0 s) 133: 133: *** No errors detected (0 s total) 72/187 Test #133: Test_Drivertool_FilePath .......................... Passed 0.01 sec test 134 Start 134: Test_Drivertool_CommandLine 134: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_CommandLine 134: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 134: Test timeout computed to be: 1500 134: Test_CommandLine passed. 73/187 Test #134: Test_Drivertool_CommandLine ....................... Passed 0.00 sec test 135 Start 135: Test_Drivertool_JsonParsing 135: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_JsonParsing 135: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 135: Test timeout computed to be: 1500 74/187 Test #135: Test_Drivertool_JsonParsing ....................... Passed 0.02 sec test 136 Start 136: Test_Drivertool_SDLResponse 136: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_SDLResponse 136: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 136: Test timeout computed to be: 1500 75/187 Test #136: Test_Drivertool_SDLResponse ....................... Passed 0.00 sec test 137 Start 137: Test_Drivertool_Accession 137: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_Accession 137: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 137: Test timeout computed to be: 1500 76/187 Test #137: Test_Drivertool_Accession ......................... Passed 0.00 sec test 138 Start 138: Test_Drivertool_UUID 138: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_UUID 138: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 138: Test timeout computed to be: 1500 77/187 Test #138: Test_Drivertool_UUID .............................. Passed 0.82 sec test 139 Start 139: Test_Drivertool_RunSource 139: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_RunSource 139: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 139: Test timeout computed to be: 1500 139: Running 18 test cases... 139: CopmmandLine_GetToolPath (0 s) 139: CommandLine_Defaults (0 s) 139: UnknownTool (0 s) 139: URL_parameter (0 s) 139: ConstructNoSDL (0 s) 139: ConstructSDL_false (0 s) 139: ConstructSDL_true (0 s) 139: ConstructSDL_badSDL (0 s) 139: ConstructSDL_noResults (0 s) 139: ConstructSDL_oneResult (0 s) 139: ConstructSDL_multipleFiles (0 s) 139: ConstructSDL_multipleLocations (0 s) 139: Query SRR000001: Error 400 no data 139: ConstructSDL_status_400 (0 s) 139: ConstructSDL_status_404 (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_pileupIgnored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_noObject_Ignored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_noQuality_Ignored (0 s) 139: No usable source for SRR000001 was found. 139: SRR000001 might be available in a different cloud provider or region. 139: ConstructSDL_Encrypted_NoNGC_Skipped (0 s) 139: 139: *** No errors detected (0 s total) 78/187 Test #139: Test_Drivertool_RunSource ......................... Passed 0.01 sec test 140 Start 140: Test_Drivertool_ToolArgs 140: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_ToolArgs 140: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 140: Test timeout computed to be: 1500 140: Running 1 test case... 140: ParseArgs (0 s) 140: 140: *** No errors detected (0 s total) 79/187 Test #140: Test_Drivertool_ToolArgs .......................... Passed 0.01 sec test 141 Start 141: Test_FasterqDump_Help 141: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump "-h" 141: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 141: Test timeout computed to be: 1500 141: 141: Usage: 141: fasterq-dump [options] 141: fasterq-dump [options] 141: 141: Options: 141: -F|--format format (special, fastq, default=fastq) 141: -o|--outfile output-file 141: -O|--outdir output-dir 141: -b|--bufsize size of file-buffer dflt=1MB 141: -c|--curcache size of cursor-cache dflt=10MB 141: -m|--mem memory limit for sorting dflt=100MB 141: -t|--temp where to put temp. files dflt=curr dir 141: -e|--threads how many thread dflt=6 141: -p|--progress show progress 141: -x|--details print details 141: -s|--split-spot split spots into reads 141: -S|--split-files write reads into different files 141: -3|--split-3 writes single reads in special file 141: --concatenate-reads writes whole spots into one file 141: -Z|--stdout print output to stdout 141: -f|--force force to overwrite existing file(s) 141: --skip-technical skip technical reads 141: --include-technical include technical reads 141: -M|--min-read-len filter by sequence-len 141: --table which seq-table to use in case of pacbio 141: -B|--bases filter by bases 141: -A|--append append to output-file 141: --fasta produce FASTA output 141: --fasta-unsorted produce FASTA output, unsorted 141: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 141: --fasta-concat-all concatenate all rows and produce FASTA 141: --internal-ref extract only internal REFERENCEs 141: --external-ref extract only external REFERENCEs 141: --ref-name extract only these REFERENCEs 141: --ref-report enumerate references 141: --use-name print name instead of seq-id 141: --seq-defline custom defline for sequence: $ac=accession, 141: $sn=spot-name, $sg=spot-group, $si=spot-id, 141: $ri=read-id, $rl=read-length 141: --qual-defline custom defline for qualities: same as 141: seq-defline 141: -U|--only-unaligned process only unaligned reads 141: -a|--only-aligned process only aligned reads 141: --disk-limit explicitly set disk-limit 141: --disk-limit-tmp explicitly set disk-limit for temp. files 141: --size-check switch to control: on=perform size-check 141: (default), off=do not perform size-check, 141: only=perform size-check only 141: --ngc PATH to ngc file 141: 141: -h|--help Output brief explanation for the program. 141: -V|--version Display the version of the program then 141: quit. 141: -L|--log-level Logging level as number or enum string. One 141: of (fatal|sys|int|err|warn|info|debug) or 141: (0-6) Current/default is warn. 141: -v|--verbose Increase the verbosity of the program 141: status messages. Use multiple times for more 141: verbosity. Negates quiet. 141: -q|--quiet Turn off all status messages for the 141: program. Negated by verbose. 141: --option-file Read more options and parameters from the 141: file. 141: for more information visit: 141: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 141: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 141: 141: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 141: 80/187 Test #141: Test_FasterqDump_Help ............................. Passed 0.01 sec test 142 Start 142: Test_FasterqDump_NotZeroWithoutParameters 142: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump 142: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 142: Test timeout computed to be: 1500 142: 142: Usage: 142: fasterq-dump [options] 142: fasterq-dump [options] 142: 142: Options: 142: -F|--format format (special, fastq, default=fastq) 142: -o|--outfile output-file 142: -O|--outdir output-dir 142: -b|--bufsize size of file-buffer dflt=1MB 142: -c|--curcache size of cursor-cache dflt=10MB 142: -m|--mem memory limit for sorting dflt=100MB 142: -t|--temp where to put temp. files dflt=curr dir 142: -e|--threads how many thread dflt=6 142: -p|--progress show progress 142: -x|--details print details 142: -s|--split-spot split spots into reads 142: -S|--split-files write reads into different files 142: -3|--split-3 writes single reads in special file 142: --concatenate-reads writes whole spots into one file 142: -Z|--stdout print output to stdout 142: -f|--force force to overwrite existing file(s) 142: --skip-technical skip technical reads 142: --include-technical include technical reads 142: -M|--min-read-len filter by sequence-len 142: --table which seq-table to use in case of pacbio 142: -B|--bases filter by bases 142: -A|--append append to output-file 142: --fasta produce FASTA output 142: --fasta-unsorted produce FASTA output, unsorted 142: --fasta-ref-tbl produce FASTA output from REFERENCE tbl 142: --fasta-concat-all concatenate all rows and produce FASTA 142: --internal-ref extract only internal REFERENCEs 142: --external-ref extract only external REFERENCEs 142: --ref-name extract only these REFERENCEs 142: --ref-report enumerate references 142: --use-name print name instead of seq-id 142: --seq-defline custom defline for sequence: $ac=accession, 142: $sn=spot-name, $sg=spot-group, $si=spot-id, 142: $ri=read-id, $rl=read-length 142: --qual-defline custom defline for qualities: same as 142: seq-defline 142: -U|--only-unaligned process only unaligned reads 142: -a|--only-aligned process only aligned reads 142: --disk-limit explicitly set disk-limit 142: --disk-limit-tmp explicitly set disk-limit for temp. files 142: --size-check switch to control: on=perform size-check 142: (default), off=do not perform size-check, 142: only=perform size-check only 142: --ngc PATH to ngc file 142: 142: -h|--help Output brief explanation for the program. 142: -V|--version Display the version of the program then 142: quit. 142: -L|--log-level Logging level as number or enum string. One 142: of (fatal|sys|int|err|warn|info|debug) or 142: (0-6) Current/default is warn. 142: -v|--verbose Increase the verbosity of the program 142: status messages. Use multiple times for more 142: verbosity. Negates quiet. 142: -q|--quiet Turn off all status messages for the 142: program. Negated by verbose. 142: --option-file Read more options and parameters from the 142: file. 142: for more information visit: 142: https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump 142: https://github.com/ncbi/sra-tools/wiki/08.-prefetch-and-fasterq-dump 142: 142: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 142: 81/187 Test #142: Test_FasterqDump_NotZeroWithoutParameters ......... Passed 0.01 sec test 143 Start 143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id 143: Test command: /usr/bin/bash "test_for_read_id_flat.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 143: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 143: Test timeout computed to be: 1500 143: spots read : 10 143: reads read : 20 143: reads written : 20 143: READ_ID1: 10 143: READ_ID2: 10 143: success testing read-id for --fasta-unsorted mode on flat table 82/187 Test #143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id ... Passed 0.34 sec test 144 Start 144: Test_FasterDump_Fasta_unsorted_cSRA_read_id 144: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump" "bash" "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb"' > tmp.kfg; ./test_for_read_id_cSRA.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 144: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 144: Test timeout computed to be: 1500 144: spots read : 10 144: reads read : 20 144: reads written : 20 144: READ_ID1: 10 144: READ_ID2: 10 144: success testing read-id for --fasta-unsorted mode on cSRA table 83/187 Test #144: Test_FasterDump_Fasta_unsorted_cSRA_read_id ....... Passed 1.15 sec test 145 Start 145: Test_Tiny_cSRA 145: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump" "bash" "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb"' > tmp.kfg; ./tiny_csra.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 145: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump 145: Test timeout computed to be: 1500 145: 145: testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump on tiny cSRA-accession 145: spots read : 3 145: reads read : 3 145: reads written : 3 84/187 Test #145: Test_Tiny_cSRA .................................... Passed 1.36 sec test 159 Start 159: SamDumpTestSetup 159: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-sam-dump-test"' > tmp.kfg" 159: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 159: Test timeout computed to be: 1500 85/187 Test #159: SamDumpTestSetup .................................. Passed 0.00 sec test 160 Start 160: Test_sam_dump_verify_omit 160: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./verify_omit_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 160: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 160: Test timeout computed to be: 1500 86/187 Test #160: Test_sam_dump_verify_omit ......................... Passed 2.51 sec test 161 Start 161: Test_sam_dump_star_quality 161: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./print_star_on_missing_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 161: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 161: Test timeout computed to be: 1500 87/187 Test #161: Test_sam_dump_star_quality ........................ Passed 1.24 sec test 162 Start 162: Test_Srapath_Check_exit_code 162: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=../.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath" 162: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath 162: Test timeout computed to be: 1500 162: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath] 88/187 Test #162: Test_Srapath_Check_exit_code ...................... Passed 0.08 sec test 164 Start 164: Test_SraPileup_Check_exit_code 164: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup" 164: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup 164: Test timeout computed to be: 1500 164: WARNING[TEST1] help message is in 'STDOUT' 164: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup] 89/187 Test #164: Test_SraPileup_Check_exit_code .................... Passed 0.13 sec test 168 Start 168: Test_VDB_Config_model 168: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/model.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model" 168: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config 168: Test timeout computed to be: 1500 168: testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-vdb-config-model 168: Running 11 test cases... 168: get_config_changed (0 s) 168: prefetch_download_to_cache (0 s) 168: user_accept_aws_charges (0 s) 168: user_accept_gcp_charges (0 s) 168: ./test/external/vdb-config/test-vdb-config-model.cpp:92: fatal error in "temp_cache_location": critical check string ( "path" ) == m . get_temp_cache_location() failed [path != /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/path] 168: temp_cache_location (0 s) 168: gcp_credential_file_location (0 s) 168: aws_credential_file_location (0 s) 168: aws_profile (0 s) 168: noCommit (0 s) 168: Commit (0 s) 168: Reload (0 s) 168: 168: *** 1 failure detected in test suite "VdbConfStridesModelTestSuite" 168: VDB Copy model test is finished 90/187 Test #168: Test_VDB_Config_model ............................. Passed 0.09 sec test 169 Start 169: Test_VDB_Config 169: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 169: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config 169: Test timeout computed to be: 1500 169: Testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config... 169: VDB config test is finished 91/187 Test #169: Test_VDB_Config ................................... Passed 0.06 sec test 170 Start 170: Test_Vdb_dump_Check_exit_code 170: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=.." "/usr/bin/python3" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump" 170: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump 170: Test timeout computed to be: 1500 170: WARNING[TEST1] help message is in 'STDOUT' 170: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump] 92/187 Test #170: Test_Vdb_dump_Check_exit_code ..................... Passed 0.14 sec test 171 Start 171: Test_Vdb_dump_view-spec 171: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Vdb_dump_view-spec 171: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump 171: Test timeout computed to be: 1500 171: Running 21 test cases... 171: NullSelf (0 s) 171: NullSpec (0 s) 171: EmptySpec (0 s) 171: NullError (0 s) 171: ZeroSizeError (0 s) 171: MissingLeftAngle (0 s) 171: EmptyAngles (0 s) 171: OneParam (0 s) 171: ManyParams (0 s) 171: MissingComma (0 s) 171: MissingParam (0 s) 171: ExtraChars (0 s) 171: NestedViews (0 s) 171: ViewSpecOpen_NullSelf (0 s) 171: ViewSpecOpen_NullParam_Db (0 s) 171: ViewSpecOpen_NullParam_Schema (0 s) 171: ViewSpecOpen_NullParam_View (0 s) 171: ViewSpecOpen_WrongNumberOfParams (0 s) 171: ViewSpecOpen_ParamNotTable (0 s) 171: MakeCursor (0 s) 171: NestedView (0 s) 171: 171: *** No errors detected (0 s total) 93/187 Test #171: Test_Vdb_dump_view-spec ........................... Passed 0.08 sec test 174 Start 174: Test_VdbValidate_Unit 174: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_VdbValidate_Unit 174: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate 174: Test timeout computed to be: 1500 174: Running 3 test cases... 174: is_sorted_empty (0 s) 174: is_sorted_sorted (0 s) 174: is_sorted_unsorted (0 s) 174: 174: *** No errors detected (0 s total) 94/187 Test #174: Test_VdbValidate_Unit ............................. Passed 0.01 sec test 178 Start 178: Test_Sra_Info_Help 178: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "-h" ">actual/Test_Sra_Info_Help.stdout" 178: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 178: Test timeout computed to be: 1500 178: 178: Usage: 178: sra-info [options] 178: 178: Options: 178: -P|--platform print platform(s) 178: -Q|--quality are quality scores stored or generated 178: -A|--is-aligned is data aligned 178: -C|--schema print schema version and dependencies 178: -S|--spot-layout print spot layout(s). Uses CONSENSUS table 178: if present, SEQUENCE table otherwise 178: -f|--format output format: 178: csv ..... comma separated values on one line 178: xml ..... xml-style 178: json .... json-style 178: tab ..... tab-separated values on one line 178: csv and tab formats can be used just with a single query 178: --schema does npt support csv and tab 178: -l|--limit limit output to elements, e.g. most 178: popular spot layouts; must be positive 178: -D|--detail detail level, <0> the least detailed 178: output; must be or greater 178: -R|--rows report spot layouts for the first rows 178: of the table 178: -h|--help Output brief explanation for the program. 178: -V|--version Display the version of the program then 178: quit. 178: -L|--log-level Logging level as number or enum string. One 178: of (fatal|sys|int|err|warn|info|debug) or 178: (0-6) Current/default is warn. 178: -v|--verbose Increase the verbosity of the program 178: status messages. Use multiple times for more 178: verbosity. Negates quiet. 178: -q|--quiet Turn off all status messages for the 178: program. Negated by verbose. 178: --option-file Read more options and parameters from the 178: file. 178: 178: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info : 3.0.9 178: 95/187 Test #178: Test_Sra_Info_Help ................................ Passed 0.01 sec test 179 Start 179: Test_Sra_Info_NoParam 179: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info 179: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 179: Test timeout computed to be: 1500 179: 179: Usage: 179: sra-info [options] 179: 179: 179: Use option --help for more information. 179: 96/187 Test #179: Test_Sra_Info_NoParam ............................. Passed 0.06 sec test 180 Start 180: Test_Sra_Info_MultipleParams 180: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "SRR000123" "SRR0001234" 180: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 180: Test timeout computed to be: 1500 180: 180: Usage: 180: sra-info [options] 180: 180: 180: Use option --help for more information. 180: 97/187 Test #180: Test_Sra_Info_MultipleParams ...................... Passed 0.07 sec test 181 Start 181: Test_Sra_Info_Limit_Negative 181: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "--spot-layout" "DRR032985" "--limit" "-1" 181: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 181: Test timeout computed to be: 1500 181: 181: 181: invalid value for --limit(not a positive number) 98/187 Test #181: Test_Sra_Info_Limit_Negative ...................... Passed 0.07 sec test 182 Start 182: Test_Sra_Info_Limit_Zero 182: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info "--spot-layout" "DRR032985" "--limit" "0" 182: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 182: Test timeout computed to be: 1500 182: 182: 182: invalid value for --limit(not a positive number) 99/187 Test #182: Test_Sra_Info_Limit_Zero .......................... Passed 0.07 sec test 188 Start 188: Test_Sra_Info_Platform_Format_CSV 188: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv" "." "4.1" 188: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 188: Test timeout computed to be: 1500 188: running 4.1 188: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv 1>./actual/4.1/stdout 2>./actual/4.1/stderr 100/187 Test #188: Test_Sra_Info_Platform_Format_CSV ................. Passed 0.27 sec test 189 Start 189: Test_Sra_Info_Platform_Format_XML 189: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml" "." "4.2" 189: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 189: Test timeout computed to be: 1500 189: running 4.2 189: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f xml 1>./actual/4.2/stdout 2>./actual/4.2/stderr 101/187 Test #189: Test_Sra_Info_Platform_Format_XML ................. Passed 0.27 sec test 190 Start 190: Test_Sra_Info_Platform_Format_Json 190: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json" "." "4.3" 190: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 190: Test timeout computed to be: 1500 190: running 4.3 190: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json 1>./actual/4.3/stdout 2>./actual/4.3/stderr 102/187 Test #190: Test_Sra_Info_Platform_Format_Json ................ Passed 0.24 sec test 191 Start 191: Test_Sra_Info_Platform_Format_Tab 191: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab" "." "4.4" 191: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 191: Test timeout computed to be: 1500 191: running 4.4 191: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab 1>./actual/4.4/stdout 2>./actual/4.4/stderr 103/187 Test #191: Test_Sra_Info_Platform_Format_Tab ................. Passed 0.27 sec test 192 Start 192: Test_Sra_Info_IsAligned_No 192: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123" "." "5.1" 192: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 192: Test timeout computed to be: 1500 192: running 5.1 192: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123 1>./actual/5.1/stdout 2>./actual/5.1/stderr 104/187 Test #192: Test_Sra_Info_IsAligned_No ........................ Passed 1.10 sec test 194 Start 194: Test_Sra_Info_Quality_Physical 194: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra" "." "6.1" 194: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 194: Test timeout computed to be: 1500 194: running 6.1 194: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra 1>./actual/6.1/stdout 2>./actual/6.1/stderr 105/187 Test #194: Test_Sra_Info_Quality_Physical .................... Passed 0.27 sec test 208 Start 208: Test_Sra_Info_Schema_Default 208: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra" "." "9.0" 208: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 208: Test timeout computed to be: 1500 208: running 9.0 208: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra 1>./actual/9.0/stdout 2>./actual/9.0/stderr 106/187 Test #208: Test_Sra_Info_Schema_Default ...................... Passed 0.22 sec test 209 Start 209: Test_Sra_Info_Schema_Json 209: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson" "." "9.1" 209: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 209: Test timeout computed to be: 1500 209: running 9.1 209: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson 1>./actual/9.1/stdout 2>./actual/9.1/stderr 107/187 Test #209: Test_Sra_Info_Schema_Json ......................... Passed 0.19 sec test 210 Start 210: Test_Sra_Info_Schema_Xml 210: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml" "." "9.2" 210: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 210: Test timeout computed to be: 1500 210: running 9.2 210: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml 1>./actual/9.2/stdout 2>./actual/9.2/stderr 108/187 Test #210: Test_Sra_Info_Schema_Xml .......................... Passed 0.22 sec test 211 Start 211: Test_Sra_Info_ACPQS_Default 211: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS" "." "10.0" 211: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 211: Test timeout computed to be: 1500 211: running 10.0 211: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS 1>./actual/10.0/stdout 2>./actual/10.0/stderr 109/187 Test #211: Test_Sra_Info_ACPQS_Default ....................... Passed 0.59 sec test 212 Start 212: Test_Sra_Info_ACPQS_Json 212: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson" "." "10.1" 212: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 212: Test timeout computed to be: 1500 212: running 10.1 212: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson 1>./actual/10.1/stdout 2>./actual/10.1/stderr 110/187 Test #212: Test_Sra_Info_ACPQS_Json .......................... Passed 0.59 sec test 213 Start 213: Test_Sra_Info_ACPQS_Xml 213: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/runtestcase.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml" "." "10.2" 213: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info 213: Test timeout computed to be: 1500 213: running 10.2 213: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml 1>./actual/10.2/stdout 2>./actual/10.2/stderr 111/187 Test #213: Test_Sra_Info_ACPQS_Xml ........................... Passed 0.52 sec test 214 Start 214: BamTestSetup 214: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-bamfload"' > tmp.kfg" 214: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 214: Test timeout computed to be: 1500 112/187 Test #214: BamTestSetup ...................................... Passed 0.00 sec test 215 Start 215: Test_BamLoader_1 215: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra test.sam" 215: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 215: Test timeout computed to be: 1500 113/187 Test #215: Test_BamLoader_1 .................................. Passed 0.42 sec test 216 Start 216: Test_BamLoader_MinBatchSize 216: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size 999999 test.sam" 216: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 216: Test timeout computed to be: 1500 114/187 Test #216: Test_BamLoader_MinBatchSize ....................... Passed 0.41 sec test 217 Start 217: Test_BamLoader_MinBatchSize_Bad 217: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size notanumber test.sam" 217: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 217: Test timeout computed to be: 1500 217: min-batch-size: bad value 217: Usage: 217: bam-load [options] 217: 217: Summary: 217: Load a BAM formatted data file 217: 217: Example: 217: bam-load -o /tmp/SRZ123456 -k analysis.bam.cfg 123456.bam 217: 217: 217: Use option --help for more information. 217: 217: 2024-11-21T01:44:17 bam-load.3.0.9 err: param incorrect while accessing argument list within application support module - load failed 115/187 Test #217: Test_BamLoader_MinBatchSize_Bad ................... Passed 0.05 sec test 218 Start 218: Test_BamLoader_platform 218: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_BamLoader_platform 218: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 218: Test timeout computed to be: 1500 116/187 Test #218: Test_BamLoader_platform ........................... Passed 0.00 sec test 219 Start 219: LatfTestSetup 219: Test command: /usr/bin/bash "-c" "echo 'vdb/schema/paths = "/usr/include/ncbi-vdb" /LIBS/GUID="8test002-6ab7-41b2-bfd0-latfload"' > tmp.kfg" 219: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 219: Test timeout computed to be: 1500 117/187 Test #219: LatfTestSetup ..................................... Passed 0.00 sec test 220 Start 220: SlowTest_FastqLoader_id2name 220: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/SlowTest_FastqLoader_id2name 220: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 220: Test timeout computed to be: 1500 220: Running 12 test cases... 220: Init_NullSelf (0 s) 220: Whack_NullSelf (0 s) 220: Init_Whack (0 s) 220: Add_NullSelf (0 s) 220: Add_NullName (0 s) 220: Get_NullSelf (0 s) 220: Get_NullRes (0 s) 220: Get_Empty (0 s) 220: Get_Found (0 s) 220: Get_NotFound (0 s) 220: AddMultiple_Get (0 s) 220: AddRealloc (0 s) 220: 220: *** No errors detected (0 s total) 118/187 Test #220: SlowTest_FastqLoader_id2name ...................... Passed 0.01 sec test 221 Start 221: Test_FastqLoader_WbFastq_dflt 221: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastq_dflt 221: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 221: Test timeout computed to be: 1500 221: Running 103 test cases... 221: EmptyFile (0 s) 221: EndLines (0 s) 221: SyntaxError1 (0 s) 221: SyntaxError2 (0 s) 221: RecoveryFromErrorAtTopLevel (0 s) 221: RecoveryFromErrorInHeader (0 s) 221: RecoveryFromErrorInRead (0 s) 221: RecoveryFromErrorInQuality (0 s) 221: ErrorLineNumber (0 s) 221: Tag1 (0 s) 221: Tag2_1 (0 s) 221: Tag2_2 (0 s) 221: Tag3 (0 s) 221: Tag4 (0 s) 221: Tag5 (0 s) 221: Tag6 (0 s) 221: Tag7 (0 s) 221: Tag8 (0 s) 221: Tag9 (0 s) 221: Tag10 (0 s) 221: Tag11 (0 s) 221: Tag12 (0 s) 221: Tag13 (0 s) 221: Tag14 (0 s) 221: Tag15 (0 s) 221: NotRejected (0 s) 221: SequenceNoAlignment (0 s) 221: TestSequenceGetReadLength (0 s) 221: TestSequenceGetReadLength_MultiLine (0 s) 221: TestSequenceGetRead (0 s) 221: TestSequenceGetRead_MultiLine (0 s) 221: TestSequenceGetRead2 (0 s) 221: TestSequenceGetRead2_StopOutOfRange (0 s) 221: TestSequenceGetRead2_StartOutOfRange (0 s) 221: TestSequenceGetRead2_MultiLine_InsideFirstLine (0 s) 221: TestSequenceGetRead2_MultiLine_InsideSecondLine (0 s) 221: TestSequenceGetRead2_MultiLine_AcrossEOL (0 s) 221: TestSequenceGetRead2_MultiLine_StopOutOfRange (0 s) 221: TestSequenceGetRead2_MultiLine_StartOutOfRange (0 s) 221: SequenceGetQuality33 (0 s) 221: SequenceGetQuality64 (0 s) 221: SequenceGetQualityLogOdds (0 s) 221: SequenceBaseSpace (0 s) 221: SequenceColorSpace (0 s) 221: SequenceGetOrientationIsReverse (0 s) 221: ReadNumber (0 s) 221: ReadNumberMissing (0 s) 221: ReadNumberDefault (0 s) 221: ReadNumberOverride (0 s) 221: RunSpotRead (0 s) 221: RunSpotRead_withTail (0 s) 221: RunSpotNothing (0 s) 221: SequenceGetSpotNameIllumina (0 s) 221: SequenceGetSpotGroupIllumina (0 s) 221: SequenceGetSpotGroupIllumina_Ignored (0 s) 221: SequenceGetSpotGroup_Empty (0 s) 221: SequenceGetSpotGroup_Zero (0 s) 221: SequenceGetSpotGroupBarcode (0 s) 221: SequenceGetSpotGroupBarcode_WithPluses (0 s) 221: SequenceGetSpotGroupUnderscore (0 s) 221: HashStyleBarcodeAndReadNumbersAndJunk (0 s) 221: SequenceWasPaired1 (0 s) 221: SequenceWasPaired2 (0 s) 221: SequenceWasPaired3 (0 s) 221: SequenceWasPaired4 (0 s) 221: SequenceWasPaired5 (0 s) 221: SequenceGetSpotNameOneLine (0 s) 221: SequenceGetNameNumeric (0 s) 221: GtStartsQualityOnly (0 s) 221: OneLineRead (0 s) 221: ForcePhredOffset (0 s) 221: IlluminaCasava_1_8 (0 s) 221: IlluminaCasava_1_8_SpotGroupNumber (0 s) 221: IlluminaCasava_1_8_SpotGroup_MoreMadness (0 s) 221: IlluminaCasava_1_8_EmptyTag (0 s) 221: Illumina_NegativeCoords (0 s) 221: Illumina_Underscore (0 s) 221: Illumina_IdentifierAtFront (0 s) 221: Illumina_SpaceAndIdentifierAtFront (0 s) 221: SRR1778155 (0 s) 221: SRA192487 (0 s) 221: NoEolAtEof (0 s) 221: GtStartsReadOnly (0 s) 221: Quality33TooLow (0 s) 221: Quality64TooLow (0 s) 221: QualityLogoddsTooLow (0 s) 221: DecimalQualityRejected (0 s) 221: PacbioRaw (0 s) 221: PacbioCcs (0 s) 221: PacbioNoReadNumbers (0 s) 221: PacbioWsCcs (0 s) 221: PacbioError (0 s) 221: NotPairedRead_Error (0 s) 221: NoFragmentInfo_Error (0 s) 221: NoColonAtTheEnd_Error (0 s) 221: MissingRead (0 s) 221: UnexpectedEOLreported (0 s) 221: AnotherUnexpectedEOLreported (0 s) 221: FastqDumpOutput (0 s) 221: Barcodes_Plus (0 s) 221: Barcodes_Underscore (0 s) 221: FastqMultiLineSequenceFasta (0 s) 221: FastqMultiLineSequenceFastq (0 s) 221: 221: *** No errors detected (0 s total) 119/187 Test #221: Test_FastqLoader_WbFastq_dflt ..................... Passed 0.06 sec test 222 Start 222: Test_FastqLoader_WbFastqParse 222: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqParse 222: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 222: Test timeout computed to be: 1500 222: Running 17 test cases... 222: EmptyInput (0 s) 222: TagLine1 (0 s) 222: SequenceQuality (0 s) 222: QualityOnly (0 s) 222: NoEOL_InQuality (0 s) 222: CRnoLF (0 s) 222: CommaSeparatedQuality3 (0 s) 222: WsBeforeEol (0 s) 222: SkipToEol (0 s) 222: InlineBaseSequence (0 s) 222: BufferBreakInTag (0 s) 222: BufferBreakInMultilineRead (0 s) 222: BufferBreakInMultilineQuality (0 s) 222: ReadNumberNotSeparated (0 s) 222: ReadNumberNotSeparated_Variation (0 s) 222: BarcodesReadNumbersJunkOhMy (0 s) 222: Aviti (0 s) 222: 222: *** No errors detected (0 s total) 120/187 Test #222: Test_FastqLoader_WbFastqParse ..................... Passed 0.01 sec test 223 Start 223: Test_FastqLoader_WbFastqLoader 223: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_FastqLoader_WbFastqLoader 223: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 223: Environment variables: 223: NCBI_SETTINGS=/ 223: VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 223: Test timeout computed to be: 1500 223: Running 14 test cases... 223: CommonWriterOneFile (0 s) 223: 2024-11-21T01:44:17 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_Error (0 s) 223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 warn: Spot 'HWUSI-EAS499:1:3:9:1822' has already been assigned a spot id 223: CommonWriterDuplicateReadnames_Allowed (0 s) 223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_SameFragment (0 s) 223: CommonWriterDuplicateReadnames_DiffFragment (0 s) 223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen with mate info, now has no mate info 223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_MatedThenUnmated (0 s) 223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen without mate info, now has mate info 223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_UnmatedThenMated (0 s) 223: NoSpotAssemply (0 s) 223: NoSpotAssemply_case2 (0 s) 223: Interleaved_OneRead (0 s) 223: Interleaved_MultipleReads (0 s) 223: Interleaved_NoMatch (0 s) 223: Interleaved_1_longer (0 s) 223: Interleaved_2_longer (0 s) 223: 223: *** No errors detected (2 s total) 121/187 Test #223: Test_FastqLoader_WbFastqLoader .................... Passed 2.72 sec test 224 Start 224: Test_FastqLoader_1.1 224: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33" "." "1.1" "0" 224: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 224: Test timeout computed to be: 1500 224: running 1.1 224: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33 -o ./actual/1.1/obj 1>./actual/1.1/load.stdout 2>./actual/1.1/load.stderr 122/187 Test #224: Test_FastqLoader_1.1 .............................. Passed 0.58 sec test 225 Start 225: Test_FastqLoader_1.2 225: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64" "." "1.2" "0" 225: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 225: Test timeout computed to be: 1500 225: running 1.2 225: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64 -o ./actual/1.2/obj 1>./actual/1.2/load.stdout 2>./actual/1.2/load.stderr 123/187 Test #225: Test_FastqLoader_1.2 .............................. Passed 0.58 sec test 226 Start 226: Test_FastqLoader_1.3 226: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33" "." "1.3" "3" 226: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 226: Test timeout computed to be: 1500 226: running 1.3 226: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33 -o ./actual/1.3/obj 1>./actual/1.3/load.stdout 2>./actual/1.3/load.stderr 124/187 Test #226: Test_FastqLoader_1.3 .............................. Passed 0.31 sec test 227 Start 227: Test_FastqLoader_1.4 227: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS" "." "1.4" "0" 227: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 227: Test timeout computed to be: 1500 227: running 1.4 227: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS -o ./actual/1.4/obj 1>./actual/1.4/load.stdout 2>./actual/1.4/load.stderr 125/187 Test #227: Test_FastqLoader_1.4 .............................. Passed 0.81 sec test 228 Start 228: Test_FastqLoader_2.1 228: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33" "." "2.1" "0" 228: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 228: Test timeout computed to be: 1500 228: running 2.1 228: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33 -o ./actual/2.1/obj 1>./actual/2.1/load.stdout 2>./actual/2.1/load.stderr 126/187 Test #228: Test_FastqLoader_2.1 .............................. Passed 0.53 sec test 229 Start 229: Test_FastqLoader_2.5 229: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33" "." "2.5" "0" 229: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 229: Test timeout computed to be: 1500 229: running 2.5 229: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33 -o ./actual/2.5/obj 1>./actual/2.5/load.stdout 2>./actual/2.5/load.stderr 127/187 Test #229: Test_FastqLoader_2.5 .............................. Passed 0.64 sec test 230 Start 230: Test_FastqLoader_2.6 230: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33" "." "2.6" "0" 230: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 230: Test timeout computed to be: 1500 230: running 2.6 230: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33 -o ./actual/2.6/obj 1>./actual/2.6/load.stdout 2>./actual/2.6/load.stderr 128/187 Test #230: Test_FastqLoader_2.6 .............................. Passed 0.61 sec test 231 Start 231: Test_FastqLoader_2.7 231: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33" "." "2.7" "3" 231: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 231: Test timeout computed to be: 1500 231: running 2.7 231: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33 -o ./actual/2.7/obj 1>./actual/2.7/load.stdout 2>./actual/2.7/load.stderr 129/187 Test #231: Test_FastqLoader_2.7 .............................. Passed 0.28 sec test 232 Start 232: Test_FastqLoader_2.7.1 232: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates" "." "2.7.1" "0" 232: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 232: Test timeout computed to be: 1500 232: running 2.7.1 232: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates -o ./actual/2.7.1/obj 1>./actual/2.7.1/load.stdout 2>./actual/2.7.1/load.stderr 130/187 Test #232: Test_FastqLoader_2.7.1 ............................ Passed 0.56 sec test 233 Start 233: Test_FastqLoader_2.8.1 233: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33" "." "2.8.1" "0" 233: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 233: Test timeout computed to be: 1500 233: running 2.8.1 233: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33 -o ./actual/2.8.1/obj 1>./actual/2.8.1/load.stdout 2>./actual/2.8.1/load.stderr 131/187 Test #233: Test_FastqLoader_2.8.1 ............................ Passed 0.57 sec test 234 Start 234: Test_FastqLoader_2.9 234: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33" "." "2.9" "3" 234: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 234: Test timeout computed to be: 1500 234: running 2.9 234: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33 -o ./actual/2.9/obj 1>./actual/2.9/load.stdout 2>./actual/2.9/load.stderr 132/187 Test #234: Test_FastqLoader_2.9 .............................. Passed 0.26 sec test 235 Start 235: Test_FastqLoader_2.9.1 235: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33" "." "2.9.1" "3" 235: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 235: Test timeout computed to be: 1500 235: running 2.9.1 235: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33 -o ./actual/2.9.1/obj 1>./actual/2.9.1/load.stdout 2>./actual/2.9.1/load.stderr 133/187 Test #235: Test_FastqLoader_2.9.1 ............................ Passed 0.27 sec test 236 Start 236: Test_FastqLoader_3.1 236: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33" "." "3.1" "0" 236: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 236: Test timeout computed to be: 1500 236: running 3.1 236: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33 -o ./actual/3.1/obj 1>./actual/3.1/load.stdout 2>./actual/3.1/load.stderr 134/187 Test #236: Test_FastqLoader_3.1 .............................. Passed 0.58 sec test 237 Start 237: Test_FastqLoader_4.1 237: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/4.fastq --tmpfs ./actual -v -o actual/4.1.obj --quality PHRED_33 2>&1 | grep "Path for scratch files: ./actual/key2id"" 237: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 237: Test timeout computed to be: 1500 237: 2024-11-21T01:44:27 latf-load.3.0.9: Path for scratch files: ./actual/key2id.3922473.1 135/187 Test #237: Test_FastqLoader_4.1 .............................. Passed 0.32 sec test 238 Start 238: Test_FastqLoader_4.2 238: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33" "." "4.2" "0" 238: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 238: Test timeout computed to be: 1500 238: running 4.2 238: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33 -o ./actual/4.2/obj 1>./actual/4.2/load.stdout 2>./actual/4.2/load.stderr 136/187 Test #238: Test_FastqLoader_4.2 .............................. Passed 0.55 sec test 239 Start 239: Test_FastqLoader_4.3.1 239: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33" "." "4.3.1" "3" 239: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 239: Test timeout computed to be: 1500 239: running 4.3.1 239: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33 -o ./actual/4.3.1/obj 1>./actual/4.3.1/load.stdout 2>./actual/4.3.1/load.stderr 137/187 Test #239: Test_FastqLoader_4.3.1 ............................ Passed 0.07 sec test 240 Start 240: Test_FastqLoader_4.5 240: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33" "." "4.5" "3" 240: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 240: Test timeout computed to be: 1500 240: running 4.5 240: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33 -o ./actual/4.5/obj 1>./actual/4.5/load.stdout 2>./actual/4.5/load.stderr 138/187 Test #240: Test_FastqLoader_4.5 .............................. Passed 0.26 sec test 241 Start 241: Test_FastqLoader_4.5.2 241: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2" "." "4.5.2" "3" 241: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 241: Test timeout computed to be: 1500 241: running 4.5.2 241: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2 -o ./actual/4.5.2/obj 1>./actual/4.5.2/load.stdout 2>./actual/4.5.2/load.stderr 139/187 Test #241: Test_FastqLoader_4.5.2 ............................ Passed 0.27 sec test 242 Start 242: Test_FastqLoader_4.6 242: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33" "." "4.6" "0" 242: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 242: Test timeout computed to be: 1500 242: running 4.6 242: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33 -o ./actual/4.6/obj 1>./actual/4.6/load.stdout 2>./actual/4.6/load.stderr 140/187 Test #242: Test_FastqLoader_4.6 .............................. Passed 0.56 sec test 243 Start 243: Test_FastqLoader_4.6.1 243: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33" "." "4.6.1" "3" 243: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 243: Test timeout computed to be: 1500 243: running 4.6.1 243: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33 -o ./actual/4.6.1/obj 1>./actual/4.6.1/load.stdout 2>./actual/4.6.1/load.stderr 141/187 Test #243: Test_FastqLoader_4.6.1 ............................ Passed 0.08 sec test 244 Start 244: Test_FastqLoader_4.7 244: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33" "." "4.7" "3" 244: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 244: Test timeout computed to be: 1500 244: running 4.7 244: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33 -o ./actual/4.7/obj 1>./actual/4.7/load.stdout 2>./actual/4.7/load.stderr 142/187 Test #244: Test_FastqLoader_4.7 .............................. Passed 0.76 sec test 245 Start 245: Test_FastqLoader_4.8 245: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames" "." "4.8" "0" 245: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 245: Test timeout computed to be: 1500 245: running 4.8 245: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames -o ./actual/4.8/obj 1>./actual/4.8/load.stdout 2>./actual/4.8/load.stderr 143/187 Test #245: Test_FastqLoader_4.8 .............................. Passed 0.72 sec test 246 Start 246: Test_FastqLoader_5.0 246: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33" "." "5.0" "0" 246: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 246: Test timeout computed to be: 1500 246: running 5.0 246: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33 -o ./actual/5.0/obj 1>./actual/5.0/load.stdout 2>./actual/5.0/load.stderr 144/187 Test #246: Test_FastqLoader_5.0 .............................. Passed 0.70 sec test 247 Start 247: Test_FastqLoader_6.0 247: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33" "." "6.0" "0" 247: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 247: Test timeout computed to be: 1500 247: running 6.0 247: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33 -o ./actual/6.0/obj 1>./actual/6.0/load.stdout 2>./actual/6.0/load.stderr 145/187 Test #247: Test_FastqLoader_6.0 .............................. Passed 0.92 sec test 248 Start 248: Test_FastqLoader_7.1 248: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33" "." "7.1" "0" 248: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 248: Test timeout computed to be: 1500 248: running 7.1 248: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.1/obj 1>./actual/7.1/load.stdout 2>./actual/7.1/load.stderr 146/187 Test #248: Test_FastqLoader_7.1 .............................. Passed 1.57 sec test 249 Start 249: Test_FastqLoader_7.2 249: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33" "." "7.2" "0" 249: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 249: Test timeout computed to be: 1500 249: running 7.2 249: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.2/obj 1>./actual/7.2/load.stdout 2>./actual/7.2/load.stderr 147/187 Test #249: Test_FastqLoader_7.2 .............................. Passed 0.81 sec test 250 Start 250: Test_FastqLoader_7.3 250: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33" "." "7.3" "0" 250: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 250: Test timeout computed to be: 1500 250: running 7.3 250: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.3/obj 1>./actual/7.3/load.stdout 2>./actual/7.3/load.stderr 148/187 Test #250: Test_FastqLoader_7.3 .............................. Passed 1.30 sec test 251 Start 251: Test_FastqLoader_8.0 251: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33" "." "8.0" "0" 251: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 251: Test timeout computed to be: 1500 251: running 8.0 251: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33 -o ./actual/8.0/obj 1>./actual/8.0/load.stdout 2>./actual/8.0/load.stderr 149/187 Test #251: Test_FastqLoader_8.0 .............................. Passed 1.25 sec test 252 Start 252: Test_FastqLoader_8.1 252: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33" "." "8.1" "3" 252: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 252: Test timeout computed to be: 1500 252: running 8.1 252: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33 -o ./actual/8.1/obj 1>./actual/8.1/load.stdout 2>./actual/8.1/load.stderr 150/187 Test #252: Test_FastqLoader_8.1 .............................. Passed 0.73 sec test 253 Start 253: Test_FastqLoader_9.0 253: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33" "." "9.0" "0" 253: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 253: Test timeout computed to be: 1500 253: running 9.0 253: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33 -o ./actual/9.0/obj 1>./actual/9.0/load.stdout 2>./actual/9.0/load.stderr 151/187 Test #253: Test_FastqLoader_9.0 .............................. Passed 0.58 sec test 254 Start 254: Test_FastqLoader_10.0 254: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33" "." "10.0" "0" 254: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 254: Test timeout computed to be: 1500 254: running 10.0 254: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33 -o ./actual/10.0/obj 1>./actual/10.0/load.stdout 2>./actual/10.0/load.stderr 152/187 Test #254: Test_FastqLoader_10.0 ............................. Passed 0.58 sec test 255 Start 255: Test_FastqLoader_11.0 255: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33" "." "11.0" "0" 255: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 255: Test timeout computed to be: 1500 255: running 11.0 255: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33 -o ./actual/11.0/obj 1>./actual/11.0/load.stdout 2>./actual/11.0/load.stderr 153/187 Test #255: Test_FastqLoader_11.0 ............................. Passed 0.55 sec test 256 Start 256: Test_FastqLoader_11.1 256: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33" "." "11.1" "0" 256: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 256: Test timeout computed to be: 1500 256: running 11.1 256: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33 -o ./actual/11.1/obj 1>./actual/11.1/load.stdout 2>./actual/11.1/load.stderr 154/187 Test #256: Test_FastqLoader_11.1 ............................. Passed 0.55 sec test 257 Start 257: Test_FastqLoader_12.0 257: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags" "." "12.0" "0" 257: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 257: Test timeout computed to be: 1500 257: running 12.0 257: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags -o ./actual/12.0/obj 1>./actual/12.0/load.stdout 2>./actual/12.0/load.stderr 155/187 Test #257: Test_FastqLoader_12.0 ............................. Passed 0.62 sec test 258 Start 258: Test_FastqLoader_12.1 258: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33" "." "12.1" "0" 258: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 258: Test timeout computed to be: 1500 258: running 12.1 258: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33 -o ./actual/12.1/obj 1>./actual/12.1/load.stdout 2>./actual/12.1/load.stderr 156/187 Test #258: Test_FastqLoader_12.1 ............................. Passed 0.57 sec test 259 Start 259: Test_FastqLoader_12.2 259: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33" "." "12.2" "0" 259: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 259: Test timeout computed to be: 1500 259: running 12.2 259: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33 -o ./actual/12.2/obj 1>./actual/12.2/load.stdout 2>./actual/12.2/load.stderr 157/187 Test #259: Test_FastqLoader_12.2 ............................. Passed 0.57 sec test 260 Start 260: Test_FastqLoader_13.0 260: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33" "." "13.0" "0" 260: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 260: Test timeout computed to be: 1500 260: running 13.0 260: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33 -o ./actual/13.0/obj 1>./actual/13.0/load.stdout 2>./actual/13.0/load.stderr 158/187 Test #260: Test_FastqLoader_13.0 ............................. Passed 0.59 sec test 261 Start 261: Test_FastqLoader_13.1 261: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33" "." "13.1" "0" 261: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 261: Test timeout computed to be: 1500 261: running 13.1 261: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33 -o ./actual/13.1/obj 1>./actual/13.1/load.stdout 2>./actual/13.1/load.stderr 159/187 Test #261: Test_FastqLoader_13.1 ............................. Passed 0.60 sec test 262 Start 262: Test_FastqLoader_14.0 262: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33" "." "14.0" "0" 262: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 262: Test timeout computed to be: 1500 262: running 14.0 262: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33 -o ./actual/14.0/obj 1>./actual/14.0/load.stdout 2>./actual/14.0/load.stderr 160/187 Test #262: Test_FastqLoader_14.0 ............................. Passed 0.57 sec test 263 Start 263: Test_FastqLoader_15.0 263: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump -x READ_SEG" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33" "." "15.0" "0" 263: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 263: Test timeout computed to be: 1500 263: running 15.0 263: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33 -o ./actual/15.0/obj 1>./actual/15.0/load.stdout 2>./actual/15.0/load.stderr 161/187 Test #263: Test_FastqLoader_15.0 ............................. Passed 0.68 sec test 264 Start 264: Test_FastqLoader_16.0 264: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO" "." "16.0" "0" 264: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 264: Test timeout computed to be: 1500 264: running 16.0 264: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO -o ./actual/16.0/obj 1>./actual/16.0/load.stdout 2>./actual/16.0/load.stderr 162/187 Test #264: Test_FastqLoader_16.0 ............................. Passed 0.64 sec test 265 Start 265: Test_FastqLoader_16.1 265: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO" "." "16.1" "0" 265: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 265: Test timeout computed to be: 1500 265: running 16.1 265: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO -o ./actual/16.1/obj 1>./actual/16.1/load.stdout 2>./actual/16.1/load.stderr 163/187 Test #265: Test_FastqLoader_16.1 ............................. Passed 0.73 sec test 266 Start 266: Test_FastqLoader_17.0 266: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33" "." "17.0" "3" 266: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 266: Test timeout computed to be: 1500 266: running 17.0 266: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33 -o ./actual/17.0/obj 1>./actual/17.0/load.stdout 2>./actual/17.0/load.stderr 164/187 Test #266: Test_FastqLoader_17.0 ............................. Passed 0.78 sec test 267 Start 267: Test_FastqLoader_18.0 267: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "./runtestcase.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump " "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33" "." "18.0" "3" 267: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 267: Test timeout computed to be: 1500 267: running 18.0 267: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33 -o ./actual/18.0/obj 1>./actual/18.0/load.stdout 2>./actual/18.0/load.stderr 165/187 Test #267: Test_FastqLoader_18.0 ............................. Passed 1.27 sec test 269 Start 269: Test_KAPP_qfile 269: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KAPP_qfile 269: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 269: Test timeout computed to be: 1500 269: start-position : 0 269: queue-size : 1024 269: block-size : 0 269: chunk-size : 1024 166/187 Test #269: Test_KAPP_qfile ................................... Passed 0.01 sec test 270 Start 270: Test_LOADERFILE 270: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADERFILE 270: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 270: Test timeout computed to be: 1500 270: Running 5 test cases... 270: KQueueFile_ReadTimeout_FGsleeps (2 s) 270: KQueueFile_ReadTimeout_BGsleeps (3 s) 270: KQueueFile_WriteTimeout (2 s) 270: KLoaderFile_eolBeforeEof (0 s) 270: KLoaderFile_noEolBeforeEof (0 s) 270: 270: *** No errors detected (7 s total) 167/187 Test #270: Test_LOADERFILE ................................... Passed 7.01 sec test 271 Start 271: Test_LOADER 271: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_LOADER 271: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader 271: Test timeout computed to be: 1500 271: Running 2 test cases... 271: LoaderMeta_Write (0 s) 271: LoaderMeta_WriteWithVersion (0 s) 271: 271: *** No errors detected (0 s total) 168/187 Test #271: Test_LOADER ....................................... Passed 0.06 sec test 272 Start 272: Test_sra_sort_meta_copy 272: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort/sra_sort_meta_copy.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 272: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort 272: Test timeout computed to be: 1500 272: Files before.xml and after.xml are identical 169/187 Test #272: Test_sra_sort_meta_copy ........................... Passed 5.31 sec test 273 Start 273: Test_Align_samextract 273: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Align_samextract 273: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align 273: Test timeout computed to be: 1500 273: Running 14 test cases... 273: Test_Qual_Decode (0 s) 273: Fast_Sequence (0 s) 273: Fast_u32toa (0 s) 273: Fast_i32toa (0 s) 273: Fast_strtoi64 (0 s) 273: Decode_Cigar (0 s) 273: Check_Cigar (0 s) 273: In_Range (0 s) 273: Is_MD5 (0 s) 273: Is_floworder (0 s) 273: header1 (0 s) 273: BAMfile (0 s) 273: Filter (0 s) 273: None of below files should hang: 273: fuzz/id000000,sig11,src000036,ophavoc,rep128 273: fuzz/id000000,src000000+000001,opsplice,rep16 273: fuzz/id000000,src000000,oparith8,pos3,val+10 273: fuzz/id000001,src000001,oparith16,pos10,val-6 273: fuzz/id000001,src000001,oparith8,pos10,val+9 273: fuzz/id000001,src000003,ophavoc,rep2 273: fuzz/id000002,src000000+000006,opsplice,rep64 273: fuzz/id000002,src000001,oparith8,pos10,val-31 273: fuzz/id000002,src000001,ophavoc,rep4 273: fuzz/id000003,src000001,ophavoc,rep2 273: fuzz/id000003,src000001,ophavoc,rep8 273: fuzz/id000003,src000007,ophavoc,rep2 273: fuzz/id000004,src000001,ophavoc,rep2 273: fuzz/id000004,src000001,ophavoc,rep32 273: fuzz/id000004,src000012,ophavoc,rep8 273: fuzz/id000005,src000001,ophavoc,rep2 273: fuzz/id000005,src000001,ophavoc,rep8 273: fuzz/id000005,src000013+000012,opsplice,rep4 273: fuzz/id000006,src000001,ophavoc,rep2 273: fuzz/id000006,src000001,ophavoc,rep4 273: fuzz/id000006,src000014,ophavoc,rep2 273: fuzz/id000007,src000002,opflip1,pos4 273: fuzz/id000007,src000023,ophavoc,rep4 273: fuzz/id000008,src000002,opflip1,pos8 273: fuzz/id000008,src000029,ophavoc,rep64 273: fuzz/id000009,src000002,opflip1,pos22 273: fuzz/id000009,src000031,ophavoc,rep2 273: fuzz/id000010,src000002,opflip1,pos25 273: fuzz/id000010,src000037+000017,opsplice,rep2 273: fuzz/id000011,src000002,opflip1,pos33 273: fuzz/id000011,src000046,ophavoc,rep2 273: fuzz/id000012,src000002,opflip4,pos20 273: fuzz/id000012,src000049,ophavoc,rep4 273: fuzz/id000013,src000002,opflip4,pos38 273: fuzz/id000013,src000048,ophavoc,rep2 273: fuzz/id000014,src000002,opflip4,pos76 273: fuzz/id000014,src000021+000026,opsplice,rep2 273: fuzz/id000015,src000002,opflip8,pos25 273: fuzz/id000015,src000056,ophavoc,rep2 273: fuzz/id000016,src000002,opint16,pos77,val-129 273: fuzz/id000016,src000002,opint8,pos14,val-1 273: fuzz/id000017,src000002,ophavoc,rep32 273: fuzz/id000017,src000002,opint16,pos77,val-129 273: fuzz/id000018,src000002,opint32,pos25,val+2147483647 273: fuzz/id000018,src000003,opint16,pos3,val-129 273: fuzz/id000019,src000002,opint32,pos33,valbe-128 273: fuzz/id000019,src000007,opflip16,pos33 273: fuzz/id000020,src000002,ophavoc,rep4 273: fuzz/id000020,src000007,opint16,pos117,val-129 273: fuzz/id000021,src000004,opint16,pos4,val+32767 273: fuzz/id000021,src000011,opflip4,pos76 273: fuzz/id000022,src000004,ophavoc,rep16 273: fuzz/id000022,src000011,opflip4,pos116 273: fuzz/id000023,src000011,opflip4,pos116 273: fuzz/id000023,src000018,opflip1,pos15 273: fuzz/id000024,src000011,opflip16,pos52 273: fuzz/id000024,src000018,opflip1,pos26 273: fuzz/id000025,src000018,opflip1,pos15 273: fuzz/id000025,src000018,opflip4,pos92 273: fuzz/id000026,src000018,opflip1,pos26 273: fuzz/id000026,src000018,opflip4,pos137 273: fuzz/id000027,src000018,opflip4,pos24 273: fuzz/id000028,src000018,opflip4,pos92 273: fuzz/id000029,src000018,opflip4,pos137 273: fuzz/id000030,src000018,opint16,pos138,val-129 273: fuzz/id000031,src000018,ophavoc,rep8 273: 273: Fuzz_Hangs (0 s) 273: 273: *** No errors detected (0 s total) 170/187 Test #273: Test_Align_samextract ............................. Passed 0.84 sec test 275 Start 275: Test_Align_Cache 275: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache/runtest.sh "/usr/include/ncbi-vdb" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "align-cache" 275: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache 275: Test timeout computed to be: 1500 275: testing align-cache 171/187 Test #275: Test_Align_Cache .................................. Passed 0.57 sec test 276 Start 276: Test_KFF 276: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_KFF 276: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 276: Test timeout computed to be: 1500 276: Running 2 test cases... 276: ExtFileFormat (0 s) 276: MagicFileFormat (0 s) 276: 276: *** No errors detected (0 s total) 172/187 Test #276: Test_KFF .......................................... Passed 0.01 sec test 277 Start 277: Test_Copycat_Help 277: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat "-h" 277: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 277: Test timeout computed to be: 1500 277: 277: Usage: 277: copycat [options] src-file dst-file 277: copycat [options] src-file [src-file...] dst-dir 277: copycat [options] -o dst-dir src-file [src-file...] 277: 277: Summary: 277: Copies files and/or directories, creating a catalog of the copied files. 277: -x|--cache-dir location of output cached files 277: -f|--force force overwrite of existing files 277: -o|--output location of output 277: -e|--extract location of extracted files 277: -E|--extract-to-dir extracted directories match normal XML 277: -X|--xml-dir XML matches extracted files 277: --input-buffer system file reads are of blocks of this size 277: --output-buffer system file writes are of blocks of this 277: size 277: --no-bzip2 do not decompress files compressed with 277: bzip2 277: --no-md5 do not calculate md5 hashes 277: -h|--help Output brief explanation for the program. 277: -V|--version Display the version of the program then 277: quit. 277: -L|--log-level Logging level as number or enum string. One 277: of (fatal|sys|int|err|warn|info|debug) or 277: (0-6) Current/default is warn. 277: -v|--verbose Increase the verbosity of the program 277: status messages. Use multiple times for more 277: verbosity. Negates quiet. 277: -q|--quiet Turn off all status messages for the 277: program. Negated by verbose. 277: --option-file Read more options and parameters from the 277: file. 277: Use: 277: Copy and catalog: 277: Some quick examples: 277: copycat dir/file.tar other-dir/file.tar 277: copy file.tar from dir to other-dir and write the catalog to stdout 277: copycat dir/file.tar otherdir/ 277: the same 277: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw other-dir.file.tar 277: copy and decrypt file.tar.nenc from dir to other-dir and catalog 277: copycat dir/file.tar "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw 277: copy and encrypt file.tar from dir to other-dir/file.tar.nenc and catalog 277: copycat "ncbi-file:dir/file.tar.nenc?encrypt&pwfile=pw1 \ 277: "ncbi-file:other-dir/file.tar.nenc?encrypt&pwfile=pw2 277: copy the file as above while changing the encryption 277: 277: Use: 277: Copy source file[s] to a destination file or directory. 277: File names can either be typical path names or they can be URLs (IRLs) using 277: the standard "file" or extended "ncbi-file" schemes. 277: The catalog is XML output sent by default to stdout. 277: As UTF-8 is accepted in the paths they are IRLs for International Resource 277: Locators. 277: 277: If the specified destination does not exist, there could be an ambiguity 277: whether the destination is supposed to be a file or directory. If the 277: entered path ends in a '/' character or if there is more than one source 277: it is assumed to mean a directory and is created as such. If neither of 277: of those apply it is assumed to be a file. 277: 277: The sources or destination may also be special Unix devices: 277: /dev/stdin is supported as a source. 277: /dev/stdout and /dev/stderr is supported as a destination. 277: Other file descriptor devices can be used in the form: 277: /dev/fd/ 277: For example /dev/stdin is synonymous with /dev/fd/0 as a source. 277: If /dev/stdout or /dev/fd/1 is used as the destination then the XML 277: output is redirected to /dev/stderr (/dev/fd/2). 277: Device /dev/null as the destination is treated as a file with only one 277: source but as a directory if more than one source. Using this device 277: means no actual file will be copied but the cataloging will be done but 277: xml-base-node must be used. 277: 277: These special devices can be entered using the URL (IRL) schemes if 277: desired. This allows the use of 'query' decorators. 277: 277: If a query is added to the URL it will need to be enclosed within '"' 277: characters on a command line to prevent premature interpretation. 277: The query for the 'ncbi-file' extension to the 'file' scheme allows 277: encryption and decryption. The supported query is introduced by the 277: standard URI/IRI syntax of a '?' character with a '&' character 277: separating individual query-entries. 277: 277: The supported query entries are: 277: 'encrypt' or 'enc' to mean the input may be encrypted or the output 277: will be encrypted, 277: 'pwfile=' gives the path to file containing the password. 277: 'pwfd=' gives the numerical file descriptor from which to read 277: the password, 277: 277: In this program the encrypted input can apply to a file contained within 277: the source rather than just the source file itself. The tool is fully 277: compatible with all versions of NCBI encryption. 277: 277: If the output is to be encrypted only the newer FIPS compliant encryption 277: will be used and applies to the whole file. 277: 277: NOTE: Not all combinations of URL specifications will work at this point. 277: 277: NOTE: using the same file descriptor for multiple sources or overlapping with 277: stdin/stdout/stderr may cause undefined behavior including hanging the 277: the program. 277: 277: The '-x' option allows small files that are typed as eligible for 277: caching to be copied to the cache directory provided. the directory 277: will be created if necessary. 277: the intent is to capture top-level files, such that files are copied 277: into the flat cache directory without regard to where they were found 277: in the input hierarchy. in the case of name conflict, output files will 277: be renamed. 277: 277: To prevent internal decompression of bzipped files, use the option 277: '--no-bzip2' 277: 277: To prevent calculation of MD5 hashes, use the option 277: '--no-md5' 277: 277: 277: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat : 3.0.9 277: 173/187 Test #277: Test_Copycat_Help ................................. Passed 0.01 sec test 278 Start 278: Test_Copycat_Bad_Name 278: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-bad-name.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 278: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 278: Test timeout computed to be: 1500 278: testing copycat expected output for file name with % 278: copycat test file name with % succeeded 174/187 Test #278: Test_Copycat_Bad_Name ............................. Passed 0.06 sec test 279 Start 279: Test_Copycat_IdenticalCopy 279: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-copy.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 279: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 279: Test timeout computed to be: 1500 279: testing copycat copy 279: copycat copy succeeded 175/187 Test #279: Test_Copycat_IdenticalCopy ........................ Passed 0.07 sec test 280 Start 280: Test_Copycat_FastqParser 280: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/test-fastq.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "copycat" 280: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat 280: Test timeout computed to be: 1500 280: testing copycat fastq parser 280: copycat fastq parser succeeded 176/187 Test #280: Test_Copycat_FastqParser .......................... Passed 0.19 sec test 281 Start 281: Test_MakeReadFilter 281: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "/usr/bin/cmake" "-E" "env" "NCBI_SETTINGS=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp/tmp.mkfg" "/usr/bin/cmake" "-E" "env" "VDB_LIBRARY_PATH=/usr/lib/x86_64-linux-gnu" "./runtest.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/usr/lib/x86_64-linux-gnu" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp" "" 281: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter 281: Test timeout computed to be: 1500 281: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /usr/lib/x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp 177/187 Test #281: Test_MakeReadFilter ............................... Passed 0.67 sec test 282 Start 282: Test_Read_filter_redact_Check_exit_code 282: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact" 282: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 282: Test timeout computed to be: 1500 282: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/read-filter-redact] 178/187 Test #282: Test_Read_filter_redact_Check_exit_code ........... Passed 0.06 sec test 283 Start 283: Test_Read_filter_redact 283: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact/runtests.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "read-filter-redact" 283: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 283: Test timeout computed to be: 1500 283: Testing read-filter-redact from /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin 179/187 Test #283: Test_Read_filter_redact ........................... Passed 0.57 sec test 284 Start 284: Test_VDB_Copy_Check_exit_code 284: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy" 284: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 284: Test timeout computed to be: 1500 284: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy] 180/187 Test #284: Test_VDB_Copy_Check_exit_code ..................... Passed 0.06 sec test 286 Start 286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession 286: Test command: /usr/bin/bash "-c" "./return_code_on_error.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 286: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 286: Test timeout computed to be: 1500 286: 2024-11-21T01:45:03 vdb-copy.3.0.9 int: item not found while copying within virtual database module - the path 'NOT_EXISTING_DIR' cannot be opened as vdb-database or vdb-table 286: SUCCESS: vdb-copy returned 3 if ask to copy a none-existing object. 181/187 Test #286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession .... Passed 0.06 sec test 288 Start 288: Test_VDB_Diff_Check_exit_code 288: Test command: /usr/bin/python3 "/build/reproducible-path/sra-sdk-3.0.9+dfsg/build/check-exit-code.py" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff" 288: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff 288: Test timeout computed to be: 1500 288: WARNING[TEST1] help message is in 'STDOUT' 288: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff] 182/187 Test #288: Test_VDB_Diff_Check_exit_code ..................... Passed 0.06 sec test 291 Start 291: Test_qa-stat 291: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/test-tools/qa-stats/runtests.sh "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats" 291: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/test-tools/qa-stats 291: Test timeout computed to be: 1500 291: Testing with default parameters. 291: Testing with one biological read. 291: Testing with one technical read. 291: Testing with two biological read. 291: Testing with one biological and one technical read. 291: Testing with multiple layouts. 183/187 Test #291: Test_qa-stat ...................................... Passed 1.64 sec test 292 Start 292: Test_Scripts_prepare-sra-names 292: Test command: /usr/bin/perl "test-prepare-sra-names.pl" 292: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 292: Test timeout computed to be: 1500 184/187 Test #292: Test_Scripts_prepare-sra-names .................... Passed 0.17 sec test 293 Start 293: Test_Scripts_fix-sra-names 293: Test command: /usr/bin/perl "test-fix-sra-names.pl" 293: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 293: Test timeout computed to be: 1500 185/187 Test #293: Test_Scripts_fix-sra-names ........................ Passed 0.08 sec test 294 Start 294: Test_Scripts_prepare-sra-names-py 294: Test command: /usr/bin/perl "test-prepare-sra-names-py.pl" 294: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 294: Test timeout computed to be: 1500 186/187 Test #294: Test_Scripts_prepare-sra-names-py ................. Passed 0.63 sec test 295 Start 295: Test_Scripts_fix-sra-names-py 295: Test command: /usr/bin/perl "test-fix-sra-names-py.pl" 295: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 295: Test timeout computed to be: 1500 187/187 Test #295: Test_Scripts_fix-sra-names-py ..................... Passed 0.39 sec 100% tests passed, 0 tests failed out of 187 Total Test time (real) = 81.26 sec make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake debian/rules override_dh_prep make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_prep -X debian/tmp make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_install cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/sra-sdk-3.0.9\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/default.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/certs.kfg': No such file or directory mkdir: cannot create directory '/usr/bin/ncbi': Permission denied cp: cannot create regular file '/usr/bin/ncbi/vdb-copy.kfg': No such file or directory -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs-c++-static.a -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ncbi-vdb/NGS.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/FragTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/AlignTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/AlignSliceTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/PileupTest.cpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples/RefTest.cpp -- Installing: 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-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cache-mgr -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sratools -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-info -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/bam-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview.3.0.9 -- 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/dump-blob-boundaries.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/dump-blob-boundaries.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/dump-blob-boundaries -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-sort.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-sort.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-sort -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-sort-cg.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-sort-cg.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sra-sort-cg -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/latf-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/latf-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/latf-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sff-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sff-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sff-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastq-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastq-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastq-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srf-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srf-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/srf-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/abi-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/abi-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/abi-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/illumina-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/illumina-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/illumina-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/helicos-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/helicos-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/helicos-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-loadxml.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-loadxml.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-loadxml -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cg-load.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cg-load.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/cg-load -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/general-loader.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/general-loader.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/general-loader -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-lock.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-lock.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-lock -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-unlock.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-unlock.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-unlock -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/align-cache.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/align-cache.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/align-cache -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/ccextract.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/ccextract.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/ccextract -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/copycat.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/copycat.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/copycat -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/make-read-filter.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/make-read-filter.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/make-read-filter -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/md5cp.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/md5cp.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/md5cp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-cmp.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-cmp.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-cmp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-copy.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-copy.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-copy -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-repair.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-repair.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/meta-repair -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-read-write-cursor.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-read-write-cursor.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-read-write-cursor -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/read-filter-redact -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-copy -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-diff -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/vdb-sql -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/fastconv -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/check-redact -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/crc32sum -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/test-download -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/kdb-index -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pacbio-correct -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/schema-replace -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/sortreadtest -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/rowwritetest -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/samview-util -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/testld -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/txt2kdb -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats.3.0.9 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/bin/pileup-stats make[2]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' # build/install.sh /usr/include/ncbi-vdb/kfg/ncbi \ # /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/etc/ncbi \ # debian/sra-toolkit/usr/bin \ # debian/sra-toolkit/usr/lib/x86_64-linux-gnu \ # /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/kfgsums build/install-kfg.sh default.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh certs.kfg /usr/include/ncbi-vdb/kfg/ncbi debian/sra-toolkit/etc/ncbi \ /usr/include/ncbi-vdb/kfg/ncbi/kfgsums build/install-kfg.sh vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy \ debian/sra-toolkit/etc/ncbi /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/kfgsums d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a*" \ usr/lib/x86_64-linux-gnu \ --override "s/libncbi-vdb3-dev/libncbi-vdb-dev/" \ debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.so Library package automatic movement utility --> libncbi-vdb-dev package exists. set -e install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu install -d -m 755 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu mv /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3.0.9 debian/libncbi-ngs3/usr/lib/x86_64-linux-gnu PKGDEV=libncbi-ngs-dev PKGSHL=libncbi-ngs3 install -d -m 755 debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu mv debian/*/usr/lib/x86_64-linux-gnu/libncbi-ngs.a* debian/libncbi-ngs-dev/usr/lib/x86_64-linux-gnu d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-a \ --exclude-la \ --movedev "debian/*/usr/lib/x86_64-linux-gnu/lib*c++.a*" \ usr/lib/x86_64-linux-gnu \ --movedev "debian/tmp/usr/include/*" usr/include \ --ignorelibdep \ debian/*/usr/lib/x86_64-linux-gnu/libngs-c++.so | \ tee /dev/stderr | LC_ALL=C grep '^[a-z]' | sh tee: /dev/stderr: Permission denied Error occurred, aborting make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' # upstream installs versioned *.a libs - we only want a single version for d in debian/lib*-dev/usr/lib/x86_64-linux-gnu ; do \ for slib in $d/lib*.a ; do \ mv $d/`readlink $slib` $slib ; \ mv $d/`readlink $slib` $slib ; \ done ; \ done ls -l debian/tmp/usr/bin total 66484 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 abi-dump -> abi-dump.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 abi-dump.3 -> abi-dump.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 269416 Nov 21 15:41 abi-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 abi-load -> abi-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 abi-load.3 -> abi-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 641128 Nov 21 15:42 abi-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 align-cache -> align-cache.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 align-cache.3 -> align-cache.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 249136 Nov 21 15:41 align-cache.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 align-info -> align-info.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 align-info.3 -> align-info.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 97336 Nov 21 15:42 align-info.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 bam-load -> bam-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 bam-load.3 -> bam-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 12839712 Nov 21 15:43 bam-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 cache-mgr -> cache-mgr.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 cache-mgr.3 -> cache-mgr.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 124680 Nov 21 15:42 cache-mgr.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 ccextract -> ccextract.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 ccextract.3 -> ccextract.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 272968 Nov 21 15:41 ccextract.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 cg-load -> cg-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 cg-load.3 -> cg-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 657864 Nov 21 15:42 cg-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 check-corrupt -> check-corrupt.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 check-corrupt.3 -> check-corrupt.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 240184 Nov 21 15:41 check-corrupt.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 check-redact -> check-redact.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 check-redact.3 -> check-redact.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 97824 Nov 21 15:41 check-redact.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 copycat -> copycat.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 copycat.3 -> copycat.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 484080 Nov 21 15:41 copycat.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 crc32sum -> crc32sum.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 crc32sum.3 -> crc32sum.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 79384 Nov 21 15:41 crc32sum.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Nov 21 15:45 dump-blob-boundaries -> dump-blob-boundaries.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 26 Nov 21 15:45 dump-blob-boundaries.3 -> dump-blob-boundaries.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 31552 Nov 21 15:41 dump-blob-boundaries.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 fastconv -> fastconv.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fastconv.3 -> fastconv.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 5034112 Nov 21 15:43 fastconv.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fasterq-dump -> fasterq-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 907712 Nov 21 15:42 fasterq-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 fasterq-dump.3 -> fasterq-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fasterq-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 fastq-dump -> fastq-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 349584 Nov 21 15:41 fastq-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 fastq-dump.3 -> fastq-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fastq-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 fastq-load -> fastq-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 fastq-load.3 -> fastq-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 701176 Nov 21 15:42 fastq-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 general-loader -> general-loader.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 general-loader.3 -> general-loader.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 1362776 Nov 21 15:42 general-loader.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 helicos-load -> helicos-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 helicos-load.3 -> helicos-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 607320 Nov 21 15:42 helicos-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 illumina-dump -> illumina-dump.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 illumina-dump.3 -> illumina-dump.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 255528 Nov 21 15:41 illumina-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 illumina-load -> illumina-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 illumina-load.3 -> illumina-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 657584 Nov 21 15:42 illumina-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 5 Nov 21 15:45 kar -> kar.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 6 Nov 21 15:45 kar+ -> kar+.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 kar+.3 -> kar+.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 237952 Nov 21 15:41 kar+.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 kar+meta -> kar+meta.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 kar+meta.3 -> kar+meta.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 159056 Nov 21 15:41 kar+meta.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 kar.3 -> kar.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 191112 Nov 21 15:41 kar.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 kdb-index -> kdb-index.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 kdb-index.3 -> kdb-index.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 78400 Nov 21 15:41 kdb-index.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 kdbmeta -> kdbmeta.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 kdbmeta.3 -> kdbmeta.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 124344 Nov 21 15:42 kdbmeta.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 latf-load -> latf-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 latf-load.3 -> latf-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 508096 Nov 21 15:42 latf-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 make-read-filter -> make-read-filter.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Nov 21 15:45 make-read-filter.3 -> make-read-filter.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 158736 Nov 21 15:41 make-read-filter.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 7 Nov 21 15:45 md5cp -> md5cp.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 md5cp.3 -> md5cp.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 89664 Nov 21 15:41 md5cp.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 meta-cmp -> meta-cmp.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 meta-cmp.3 -> meta-cmp.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 82024 Nov 21 15:41 meta-cmp.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 meta-copy -> meta-copy.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 meta-copy.3 -> meta-copy.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 81952 Nov 21 15:41 meta-copy.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 meta-repair -> meta-repair.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 meta-repair.3 -> meta-repair.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 135992 Nov 21 15:41 meta-repair.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 ngs-pileup -> ngs-pileup.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 ngs-pileup.3 -> ngs-pileup.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 2547992 Nov 21 15:42 ngs-pileup.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 pacbio-correct -> pacbio-correct.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 pacbio-correct.3 -> pacbio-correct.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 76024 Nov 21 15:41 pacbio-correct.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 pacbio-load -> pacbio-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 pacbio-load.3 -> pacbio-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 476864 Nov 21 15:42 pacbio-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 pacbio-loadxml -> pacbio-loadxml.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 pacbio-loadxml.3 -> pacbio-loadxml.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 590968 Nov 21 15:42 pacbio-loadxml.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 pileup-stats -> pileup-stats.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 pileup-stats.3 -> pileup-stats.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 2779880 Nov 21 15:42 pileup-stats.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 prefetch -> prefetch.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 466784 Nov 21 15:41 prefetch-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 prefetch.3 -> prefetch.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 prefetch.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 rcexplain -> rcexplain.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 rcexplain.3 -> rcexplain.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 67456 Nov 21 15:42 rcexplain.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 read-filter-redact -> read-filter-redact.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 24 Nov 21 15:45 read-filter-redact.3 -> read-filter-redact.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 111192 Nov 21 15:41 read-filter-redact.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 ref-variation -> ref-variation.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 ref-variation.3 -> ref-variation.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 2921088 Nov 21 15:42 ref-variation.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 rowwritetest -> rowwritetest.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 rowwritetest.3 -> rowwritetest.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 88584 Nov 21 15:41 rowwritetest.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sam-dump -> sam-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 834504 Nov 21 15:42 sam-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sam-dump.3 -> sam-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sam-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 samview -> samview.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 samview-util -> samview-util.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 samview-util.3 -> samview-util.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 64128 Nov 21 15:41 samview-util.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 samview.3 -> samview.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 305680 Nov 21 15:41 samview.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 schema-replace -> schema-replace.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 schema-replace.3 -> schema-replace.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 82928 Nov 21 15:41 schema-replace.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sff-dump -> sff-dump.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sff-dump.3 -> sff-dump.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 234424 Nov 21 15:41 sff-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sff-load -> sff-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sff-load.3 -> sff-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 652080 Nov 21 15:42 sff-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sortreadtest -> sortreadtest.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 sortreadtest.3 -> sortreadtest.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 79784 Nov 21 15:41 sortreadtest.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sra-info -> sra-info.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-info.3 -> sra-info.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 2263624 Nov 21 15:41 sra-info.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 sra-pileup -> sra-pileup.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 443728 Nov 21 15:42 sra-pileup-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 sra-pileup.3 -> sra-pileup.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-pileup.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 sra-search -> sra-search.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 sra-search.3 -> sra-search.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 3981768 Nov 21 15:42 sra-search.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sra-sort -> sra-sort.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 sra-sort-cg -> sra-sort-cg.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 sra-sort-cg.3 -> sra-sort-cg.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 808808 Nov 21 15:41 sra-sort-cg.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-sort.3 -> sra-sort.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 808840 Nov 21 15:41 sra-sort.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sra-stat -> sra-stat.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-stat.3 -> sra-stat.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 338192 Nov 21 15:42 sra-stat.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 srapath -> srapath.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 256120 Nov 21 15:42 srapath-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 srapath.3 -> srapath.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 srapath.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sratools -> sratools.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sratools.3 -> sratools.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 5131504 Nov 21 15:42 sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 srf-load -> srf-load.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 srf-load.3 -> srf-load.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 833144 Nov 21 15:42 srf-load.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 test-download -> test-download.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 test-download.3 -> test-download.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 93648 Nov 21 15:41 test-download.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 24 Nov 21 15:45 test-read-write-cursor -> test-read-write-cursor.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 28 Nov 21 15:45 test-read-write-cursor.3 -> test-read-write-cursor.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 75488 Nov 21 15:41 test-read-write-cursor.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 test-sra -> test-sra.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 test-sra.3 -> test-sra.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 343504 Nov 21 15:42 test-sra.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 8 Nov 21 15:45 testld -> testld.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 testld.3 -> testld.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 76472 Nov 21 15:41 testld.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 txt2kdb -> txt2kdb.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 txt2kdb.3 -> txt2kdb.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 83256 Nov 21 15:41 txt2kdb.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 var-expand -> var-expand.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 var-expand.3 -> var-expand.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 1994376 Nov 21 15:42 var-expand.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 vdb-config -> vdb-config.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 vdb-config.3 -> vdb-config.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 2899248 Nov 21 15:42 vdb-config.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-copy -> vdb-copy.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-copy.3 -> vdb-copy.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 329672 Nov 21 15:41 vdb-copy.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 vdb-decrypt -> vdb-decrypt.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 vdb-decrypt.3 -> vdb-decrypt.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 121584 Nov 21 15:42 vdb-decrypt.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-diff -> vdb-diff.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-diff.3 -> vdb-diff.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 155224 Nov 21 15:41 vdb-diff.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-dump -> vdb-dump.3 -rwxr-xr-x 1 pbuilder2 pbuilder2 897936 Nov 21 15:42 vdb-dump-orig.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-dump.3 -> vdb-dump.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-dump.3.0.9 -> sratools.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 vdb-encrypt -> vdb-encrypt.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 vdb-encrypt.3 -> vdb-encrypt.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 119952 Nov 21 15:42 vdb-encrypt.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-lock -> vdb-lock.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-lock.3 -> vdb-lock.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 68336 Nov 21 15:41 vdb-lock.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 vdb-sql -> vdb-sql.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 vdb-sql.3 -> vdb-sql.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 5287424 Nov 21 15:43 vdb-sql.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 vdb-unlock -> vdb-unlock.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 vdb-unlock.3 -> vdb-unlock.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 68344 Nov 21 15:41 vdb-unlock.3.0.9 lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-validate -> vdb-validate.3 lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 vdb-validate.3 -> vdb-validate.3.0.9 -rwxr-xr-x 1 pbuilder2 pbuilder2 259912 Nov 21 15:42 vdb-validate.3.0.9 cd debian/tmp/usr/bin && \ for bin in *-orig.* ; do \ base=${bin%-orig.*} && \ vbase=$(readlink "$(readlink $base)") && \ vdriver=$(readlink "$vbase") && \ mv -v $bin $base-orig && \ ln -snfv ${vdriver%%.[0-9]*} $vbase || exit $? ; \ done && \ for bin in *[a-z+] ; do \ bin2=$(readlink $bin) ; \ bin3=$(readlink "$bin2") ; \ case $bin2 in \ $bin.* ) rm -v $bin2 && mv -v $bin3 $bin || exit $? ;; \ esac ; \ done renamed 'fasterq-dump-orig.3.0.9' -> 'fasterq-dump-orig' 'fasterq-dump.3.0.9' -> 'sratools' renamed 'fastq-dump-orig.3.0.9' -> 'fastq-dump-orig' 'fastq-dump.3.0.9' -> 'sratools' renamed 'prefetch-orig.3.0.9' -> 'prefetch-orig' 'prefetch.3.0.9' -> 'sratools' renamed 'sam-dump-orig.3.0.9' -> 'sam-dump-orig' 'sam-dump.3.0.9' -> 'sratools' renamed 'sra-pileup-orig.3.0.9' -> 'sra-pileup-orig' 'sra-pileup.3.0.9' -> 'sratools' renamed 'srapath-orig.3.0.9' -> 'srapath-orig' 'srapath.3.0.9' -> 'sratools' renamed 'vdb-dump-orig.3.0.9' -> 'vdb-dump-orig' 'vdb-dump.3.0.9' -> 'sratools' removed 'abi-dump.3' renamed 'abi-dump.3.0.9' -> 'abi-dump' removed 'abi-load.3' renamed 'abi-load.3.0.9' -> 'abi-load' removed 'align-cache.3' renamed 'align-cache.3.0.9' -> 'align-cache' removed 'align-info.3' renamed 'align-info.3.0.9' -> 'align-info' removed 'bam-load.3' renamed 'bam-load.3.0.9' -> 'bam-load' removed 'cache-mgr.3' renamed 'cache-mgr.3.0.9' -> 'cache-mgr' removed 'ccextract.3' renamed 'ccextract.3.0.9' -> 'ccextract' removed 'cg-load.3' renamed 'cg-load.3.0.9' -> 'cg-load' removed 'check-corrupt.3' renamed 'check-corrupt.3.0.9' -> 'check-corrupt' removed 'check-redact.3' renamed 'check-redact.3.0.9' -> 'check-redact' removed 'copycat.3' renamed 'copycat.3.0.9' -> 'copycat' removed 'crc32sum.3' renamed 'crc32sum.3.0.9' -> 'crc32sum' removed 'dump-blob-boundaries.3' renamed 'dump-blob-boundaries.3.0.9' -> 'dump-blob-boundaries' removed 'fastconv.3' renamed 'fastconv.3.0.9' -> 'fastconv' removed 'fasterq-dump.3' renamed 'fasterq-dump.3.0.9' -> 'fasterq-dump' removed 'fastq-dump.3' renamed 'fastq-dump.3.0.9' -> 'fastq-dump' removed 'fastq-load.3' renamed 'fastq-load.3.0.9' -> 'fastq-load' removed 'general-loader.3' renamed 'general-loader.3.0.9' -> 'general-loader' removed 'helicos-load.3' renamed 'helicos-load.3.0.9' -> 'helicos-load' removed 'illumina-dump.3' renamed 'illumina-dump.3.0.9' -> 'illumina-dump' removed 'illumina-load.3' renamed 'illumina-load.3.0.9' -> 'illumina-load' removed 'kar.3' renamed 'kar.3.0.9' -> 'kar' removed 'kar+.3' renamed 'kar+.3.0.9' -> 'kar+' removed 'kar+meta.3' renamed 'kar+meta.3.0.9' -> 'kar+meta' removed 'kdb-index.3' renamed 'kdb-index.3.0.9' -> 'kdb-index' removed 'kdbmeta.3' renamed 'kdbmeta.3.0.9' -> 'kdbmeta' removed 'latf-load.3' renamed 'latf-load.3.0.9' -> 'latf-load' removed 'make-read-filter.3' renamed 'make-read-filter.3.0.9' -> 'make-read-filter' removed 'md5cp.3' renamed 'md5cp.3.0.9' -> 'md5cp' removed 'meta-cmp.3' renamed 'meta-cmp.3.0.9' -> 'meta-cmp' removed 'meta-copy.3' renamed 'meta-copy.3.0.9' -> 'meta-copy' removed 'meta-repair.3' renamed 'meta-repair.3.0.9' -> 'meta-repair' removed 'ngs-pileup.3' renamed 'ngs-pileup.3.0.9' -> 'ngs-pileup' removed 'pacbio-correct.3' renamed 'pacbio-correct.3.0.9' -> 'pacbio-correct' removed 'pacbio-load.3' renamed 'pacbio-load.3.0.9' -> 'pacbio-load' removed 'pacbio-loadxml.3' renamed 'pacbio-loadxml.3.0.9' -> 'pacbio-loadxml' removed 'pileup-stats.3' renamed 'pileup-stats.3.0.9' -> 'pileup-stats' removed 'prefetch.3' renamed 'prefetch.3.0.9' -> 'prefetch' removed 'rcexplain.3' renamed 'rcexplain.3.0.9' -> 'rcexplain' removed 'read-filter-redact.3' renamed 'read-filter-redact.3.0.9' -> 'read-filter-redact' removed 'ref-variation.3' renamed 'ref-variation.3.0.9' -> 'ref-variation' removed 'rowwritetest.3' renamed 'rowwritetest.3.0.9' -> 'rowwritetest' removed 'sam-dump.3' renamed 'sam-dump.3.0.9' -> 'sam-dump' removed 'samview.3' renamed 'samview.3.0.9' -> 'samview' removed 'samview-util.3' renamed 'samview-util.3.0.9' -> 'samview-util' removed 'schema-replace.3' renamed 'schema-replace.3.0.9' -> 'schema-replace' removed 'sff-dump.3' renamed 'sff-dump.3.0.9' -> 'sff-dump' removed 'sff-load.3' renamed 'sff-load.3.0.9' -> 'sff-load' removed 'sortreadtest.3' renamed 'sortreadtest.3.0.9' -> 'sortreadtest' removed 'sra-info.3' renamed 'sra-info.3.0.9' -> 'sra-info' removed 'sra-pileup.3' renamed 'sra-pileup.3.0.9' -> 'sra-pileup' removed 'sra-search.3' renamed 'sra-search.3.0.9' -> 'sra-search' removed 'sra-sort.3' renamed 'sra-sort.3.0.9' -> 'sra-sort' removed 'sra-sort-cg.3' renamed 'sra-sort-cg.3.0.9' -> 'sra-sort-cg' removed 'sra-stat.3' renamed 'sra-stat.3.0.9' -> 'sra-stat' removed 'srapath.3' renamed 'srapath.3.0.9' -> 'srapath' removed 'sratools.3' renamed 'sratools.3.0.9' -> 'sratools' removed 'srf-load.3' renamed 'srf-load.3.0.9' -> 'srf-load' removed 'test-download.3' renamed 'test-download.3.0.9' -> 'test-download' removed 'test-read-write-cursor.3' renamed 'test-read-write-cursor.3.0.9' -> 'test-read-write-cursor' removed 'test-sra.3' renamed 'test-sra.3.0.9' -> 'test-sra' removed 'testld.3' renamed 'testld.3.0.9' -> 'testld' removed 'txt2kdb.3' renamed 'txt2kdb.3.0.9' -> 'txt2kdb' removed 'var-expand.3' renamed 'var-expand.3.0.9' -> 'var-expand' removed 'vdb-config.3' renamed 'vdb-config.3.0.9' -> 'vdb-config' removed 'vdb-copy.3' renamed 'vdb-copy.3.0.9' -> 'vdb-copy' removed 'vdb-decrypt.3' renamed 'vdb-decrypt.3.0.9' -> 'vdb-decrypt' removed 'vdb-diff.3' renamed 'vdb-diff.3.0.9' -> 'vdb-diff' removed 'vdb-dump.3' renamed 'vdb-dump.3.0.9' -> 'vdb-dump' removed 'vdb-encrypt.3' renamed 'vdb-encrypt.3.0.9' -> 'vdb-encrypt' removed 'vdb-lock.3' renamed 'vdb-lock.3.0.9' -> 'vdb-lock' removed 'vdb-sql.3' renamed 'vdb-sql.3.0.9' -> 'vdb-sql' removed 'vdb-unlock.3' renamed 'vdb-unlock.3.0.9' -> 'vdb-unlock' removed 'vdb-validate.3' renamed 'vdb-validate.3.0.9' -> 'vdb-validate' mkdir debian/tmp/usr/lib/sra-toolkit mv debian/tmp/usr/bin/sratools debian/tmp/usr/lib/sra-toolkit for x in debian/tmp/usr/bin/*-orig; do \ mv -v $x debian/tmp/usr/lib/sra-toolkit ; \ ln -snfv ../lib/sra-toolkit/sratools ${x%-orig} ; \ done renamed 'debian/tmp/usr/bin/fasterq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fasterq-dump-orig' 'debian/tmp/usr/bin/fasterq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/fastq-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/fastq-dump-orig' 'debian/tmp/usr/bin/fastq-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/prefetch-orig' -> 'debian/tmp/usr/lib/sra-toolkit/prefetch-orig' 'debian/tmp/usr/bin/prefetch' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sam-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sam-dump-orig' 'debian/tmp/usr/bin/sam-dump' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/sra-pileup-orig' -> 'debian/tmp/usr/lib/sra-toolkit/sra-pileup-orig' 'debian/tmp/usr/bin/sra-pileup' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/srapath-orig' -> 'debian/tmp/usr/lib/sra-toolkit/srapath-orig' 'debian/tmp/usr/bin/srapath' -> '../lib/sra-toolkit/sratools' renamed 'debian/tmp/usr/bin/vdb-dump-orig' -> 'debian/tmp/usr/lib/sra-toolkit/vdb-dump-orig' 'debian/tmp/usr/bin/vdb-dump' -> '../lib/sra-toolkit/sratools' dh_install # remove susipcious file which is not executable and conflicts with package magic rm -f debian/*/usr/bin/magic # Formally supply a standard installation ID to satisfy sratools echo '/LIBS/GUID = "806b5c3b-0088-4732-8359-51630950d723"' >debian/sra-toolkit/etc/ncbi/debian.kfg set -e && for i in 3.13 3.12; do \ cd ngs/ngs-python; \ python$i ./setup.py install --install-layout=deb \ --root /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/python3-ngs; \ cd ../..; \ done /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. !! ******************************************************************************** Please avoid running ``setup.py`` directly. Instead, use pypa/build, pypa/installer or other standards-based tools. See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. ******************************************************************************** !! self.initialize_options() /usr/lib/python3/dist-packages/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' find debian -name "*.pyc" -delete find debian -type d -name __pycache__ | xargs rm -rf make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake debian/rules override_dh_installexamples make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_installexamples find debian/*/ -name .gitignore -delete make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_python3 -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake debian/rules execute_before_dh_link make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' # Putting the upstream version number (without the dfsg part) at the end of # symlink source in the -jni package. sed -e 's/\(#STRIPPED_UPSTREAM_VERSION#\)/\13.0.9+dfsg/' \ -e 's/#STRIPPED_UPSTREAM_VERSION#\(.*\)+dfsg[0-9]*/\1/' \ -e 's/\$[({]DEB_HOST_MULTIARCH[)}]/x86_64-linux-gnu/g' \ debian/libngs-jni.links.in > debian/libngs-jni.links make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake jh_manifest -O--buildsystem=cmake Duplicate specification "V:s" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake mh_installpoms -O--buildsystem=cmake mh_linkjars --skip-clean-poms -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: symbol ctx_event used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KConfigRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VTableOpenIndexRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VCursorGetBlob used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol xcTypeIncorrect used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol string_dup used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol string_copy used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VBlobIdRange used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KMetadataOpenNodeRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol KRepositoryMgrRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: 133 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dpkg-gencontrol: warning: package libncbi-ngs-dev: substitution variable ${devlibs:Depends} unused, but is defined dpkg-gencontrol: warning: Depends field of package libngs-jni: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'sra-toolkit' in '../sra-toolkit_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3-dbgsym' in '../libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++-dev' in '../libngs-c++-dev_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3' in '../libngs-c++3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3' in '../libncbi-ngs3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs-dev' in '../libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs3-dbgsym' in '../libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java-doc' in '../libngs-java-doc_3.0.9+dfsg-7_all.deb'. dpkg-deb: building package 'libngs-jni' in '../libngs-jni_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java' in '../libngs-java_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'python3-ngs' in '../python3-ngs_3.0.9+dfsg-7_all.deb'. dpkg-genbuildinfo --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.buildinfo dpkg-genchanges --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3843499 and its subdirectories I: Current time: Thu Nov 21 15:46:15 +14 2024 I: pbuilder-time-stamp: 1732153575 + false + set +x Thu Nov 21 01:46:15 UTC 2024 I: Signing ./b2/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo as sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc Thu Nov 21 01:46:15 UTC 2024 I: Signed ./b2/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo as ./b2/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc Thu Nov 21 01:46:15 UTC 2024 - build #2 for sra-sdk/unstable/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Thu Nov 21 01:46:15 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-aq7Vl2qZ, removing. /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0: total 1772 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 01:36 b1 drwxr-xr-x 2 jenkins jenkins 4096 Nov 21 01:46 b2 -rw------- 1 jenkins jenkins 1796485 Nov 21 01:36 rbuildlog.zSOIPX1 -rw-r--r-- 1 jenkins jenkins 2947 Oct 18 03:27 sra-sdk_3.0.9+dfsg-7.dsc /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1: total 31116 -rw-r--r-- 1 jenkins jenkins 1792125 Nov 21 01:36 build.log -rw-r--r-- 1 jenkins jenkins 173900 Nov 21 01:36 libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 711876 Nov 21 01:36 libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 156212 Nov 21 01:36 libncbi-ngs3_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 187360 Nov 21 01:36 libngs-c++-dev_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 525072 Nov 21 01:36 libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 130764 Nov 21 01:36 libngs-c++3_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 107396 Nov 21 01:36 libngs-java-doc_3.0.9+dfsg-7_all.deb -rw-r--r-- 1 jenkins jenkins 111784 Nov 21 01:36 libngs-java_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 25556 Nov 21 01:36 libngs-jni_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 44448 Nov 21 01:36 python3-ngs_3.0.9+dfsg-7_all.deb -rw-r--r-- 1 jenkins jenkins 3791952 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2947 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7.dsc -rw-r--r-- 1 jenkins jenkins 18694 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 19576 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 5254 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_amd64.changes -rw-r--r-- 1 jenkins jenkins 1408 Nov 21 01:36 sra-sdk_3.0.9+dfsg-7_source.changes -rw-r--r-- 1 jenkins jenkins 17422852 Nov 21 01:36 sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 6519580 Nov 21 01:36 sra-toolkit_3.0.9+dfsg-7_amd64.deb /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2: total 31040 -rw-r--r-- 1 jenkins jenkins 1793733 Nov 21 01:46 build.log -rw-r--r-- 1 jenkins jenkins 173900 Nov 21 01:46 libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 711876 Nov 21 01:46 libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 156212 Nov 21 01:46 libncbi-ngs3_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 187360 Nov 21 01:46 libngs-c++-dev_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 525072 Nov 21 01:46 libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 130764 Nov 21 01:46 libngs-c++3_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 107396 Nov 21 01:46 libngs-java-doc_3.0.9+dfsg-7_all.deb -rw-r--r-- 1 jenkins jenkins 111784 Nov 21 01:46 libngs-java_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 25556 Nov 21 01:46 libngs-jni_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 44448 Nov 21 01:46 python3-ngs_3.0.9+dfsg-7_all.deb -rw-r--r-- 1 jenkins jenkins 3791952 Nov 21 01:46 sra-sdk_3.0.9+dfsg-7.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2947 Nov 21 01:46 sra-sdk_3.0.9+dfsg-7.dsc -rw-r--r-- 1 jenkins jenkins 18685 Nov 21 01:46 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo -rw-r--r-- 1 jenkins jenkins 19567 Nov 21 01:46 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 5254 Nov 21 01:46 sra-sdk_3.0.9+dfsg-7_amd64.changes -rw-r--r-- 1 jenkins jenkins 1408 Nov 21 01:46 sra-sdk_3.0.9+dfsg-7_source.changes -rw-r--r-- 1 jenkins jenkins 17422852 Nov 21 01:46 sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb -rw-r--r-- 1 jenkins jenkins 6519580 Nov 21 01:46 sra-toolkit_3.0.9+dfsg-7_amd64.deb Thu Nov 21 01:46:16 UTC 2024 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Thu Nov 21 01:46:16 UTC 2024 I: sra-sdk_3.0.9+dfsg-7_amd64.changes: Format: 1.8 Date: Thu, 17 Oct 2024 22:48:06 -0400 Source: sra-sdk Binary: libncbi-ngs-dev libncbi-ngs3 libncbi-ngs3-dbgsym libngs-c++-dev libngs-c++3 libngs-c++3-dbgsym libngs-java libngs-java-doc libngs-jni python3-ngs sra-toolkit sra-toolkit-dbgsym Architecture: amd64 all Version: 3.0.9+dfsg-7 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Aaron M. Ucko Description: libncbi-ngs-dev - Next Generation Sequencing language Bindings (C++ development) libncbi-ngs3 - Next Generation Sequencing language Bindings (full runtime) libngs-c++-dev - Next Generation Sequencing language Bindings (C++ development) libngs-c++3 - Next Generation Sequencing language Bindings (C++ runtime) libngs-java - Next Generation Sequencing language Bindings (Java bindings) libngs-java-doc - Next Generation Sequencing language Bindings (Java documentation) libngs-jni - Next Generation Sequencing language Bindings (Java native binding python3-ngs - Next Generation Sequencing language Bindings (Python3 bindings) sra-toolkit - utilities for the NCBI Sequence Read Archive Changes: sra-sdk (3.0.9+dfsg-7) unstable; urgency=medium . * Upload to unstable to join Mbed TLS 3.x. (See #1075868.) * debian/salsa-ci.yml: Comment out aptly setup, no longer needed. * Add changelog entries for 3.0.3+dfsg-7 through -9 to placate dgit. Checksums-Sha1: 00c2958ad888708052f918ae053cf446ec46b42e 173900 libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb 97afef55ec1be594e8dd56e6978602b5920ab60d 711876 libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb ca4869ed6aecf0ee3f18472f7469252de49770e2 156212 libncbi-ngs3_3.0.9+dfsg-7_amd64.deb 4d6e727c523d06062e269dd3abec18310d97814a 187360 libngs-c++-dev_3.0.9+dfsg-7_amd64.deb a4a88fe7cc97ba2838c474a86d107b1c5fc4f4ca 525072 libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb d6d9fa63f28f779d75be4acbe55b8813df2f4ba8 130764 libngs-c++3_3.0.9+dfsg-7_amd64.deb 119e4d15b1319f9d8c1f11919d6140fa90ee2171 107396 libngs-java-doc_3.0.9+dfsg-7_all.deb 086595b988672f4c7fa5111097b66b0db35795a5 111784 libngs-java_3.0.9+dfsg-7_amd64.deb 6ecaea5ee39afe601fa25d83c18600cf28220276 25556 libngs-jni_3.0.9+dfsg-7_amd64.deb 5b4e7d6bd7816e6cfa9221a1ec915c9f553a1a7f 44448 python3-ngs_3.0.9+dfsg-7_all.deb 1de496835e6cc0e7158b38af0458d91a871f3e08 18694 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo faeeaaf52827eadea9e9f2e094d6805a4572bf37 17422852 sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb d34b3bc0c1eb97a94808c996b344754c6d95912f 6519580 sra-toolkit_3.0.9+dfsg-7_amd64.deb Checksums-Sha256: bb8e878b0a60b6c5cd16c86ec7fc6e13b1298d2468491bd47ec62094d30034fa 173900 libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb b3850a1aeecaa6afcfa6f9c0d95e5a3332967e2318bc6b7b6b7f0c008b0e092e 711876 libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb 8726b0f7c32e2b4bde3c0833ba10c5566c37b35597427b42221f412a8d6331ba 156212 libncbi-ngs3_3.0.9+dfsg-7_amd64.deb 14116e9824d79e5e281e2323e58c82db199ced790c22629686fe59614714df94 187360 libngs-c++-dev_3.0.9+dfsg-7_amd64.deb ae5f37582e1d84f5e19b31da5f91b16790f0f02f036d0943df533266e1984b6f 525072 libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb cc2bc452ce30bc33860b8ba90d4b785dc113792bbf429f9de97f8dcaac83ce57 130764 libngs-c++3_3.0.9+dfsg-7_amd64.deb 9926e925485ccfa639ec08c92d5c127d477af3e8fbcab86623d80cf52ceddae0 107396 libngs-java-doc_3.0.9+dfsg-7_all.deb ec101c02ae90f7cc1c71ee51208ab90d99fcf91e22770c363802319b4ad298b9 111784 libngs-java_3.0.9+dfsg-7_amd64.deb 684a06ea095ac517b2f567df3d4e5db77f8b5cc7f67de07a79265d68a131b491 25556 libngs-jni_3.0.9+dfsg-7_amd64.deb d7bfbc6a60bc94d02ab18bc0d70190dd0335da995de49e2feebec47206d9a90d 44448 python3-ngs_3.0.9+dfsg-7_all.deb ec356c318c66c2fcb8d563820dc84945f6a16108dc469b268df2b0c72384e437 18694 sra-sdk_3.0.9+dfsg-7_amd64.buildinfo 7bab53124396bbeb8263cd4253503aba83f73091c038c3786e6667ca037231f9 17422852 sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb d30ced434a46268e667850b31b04d521611c5d833669e8f14c94d3f9c4dbda7c 6519580 sra-toolkit_3.0.9+dfsg-7_amd64.deb Files: b6d12c5b254d5ee201c650d2dc9241c6 173900 libdevel optional libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb dadabf471437bb79b6613b67c7308aa6 711876 debug optional libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb 45be4b79faff4106d35a8dca36abc2a1 156212 libs optional libncbi-ngs3_3.0.9+dfsg-7_amd64.deb fbd954a8d5ba38c7dd9ab65831d37dcf 187360 libdevel optional libngs-c++-dev_3.0.9+dfsg-7_amd64.deb 2c2ef266a112af1aeb5bd579e3d20b6a 525072 debug optional libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb fc9462aa3bca73400cc99a676516d442 130764 libs optional libngs-c++3_3.0.9+dfsg-7_amd64.deb aa79f435997d5592ae641cfb88702c5e 107396 doc optional libngs-java-doc_3.0.9+dfsg-7_all.deb 0a21f22da1a265b11267060a61ca7af0 111784 java optional libngs-java_3.0.9+dfsg-7_amd64.deb 49fe1df668f4c5423964a84f124afd90 25556 java optional libngs-jni_3.0.9+dfsg-7_amd64.deb ae6eca137dc05304bc4d7b982e02f1eb 44448 python optional python3-ngs_3.0.9+dfsg-7_all.deb 8260c0f72018eef67260fba4d92a3af8 18694 science optional sra-sdk_3.0.9+dfsg-7_amd64.buildinfo ad2dd78926671d44e57bdba88e489aed 17422852 debug optional sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb 967bfba2d37122e2fb37259a934f7be0 6519580 science optional sra-toolkit_3.0.9+dfsg-7_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/sra-sdk_3.0.9+dfsg-7.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/sra-sdk_3.0.9+dfsg-7.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/sra-sdk_3.0.9+dfsg-7.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/amd64/sra-sdk_3.0.9+dfsg-7.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/amd64/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/sra-sdk_3.0.9+dfsg-7.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2024-11-21 01:36:25.910506244 +0000 +++ b2/build.log 2024-11-21 01:46:16.019901510 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Tue Dec 23 19:52:30 -12 2025 -I: pbuilder-time-stamp: 1766562750 +I: Current time: Thu Nov 21 15:36:30 +14 2024 +I: pbuilder-time-stamp: 1732152990 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -42,52 +42,84 @@ dpkg-source: info: applying missing_include.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/2302652/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D01_modify_environment starting +debug: Running on ionos1-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Nov 21 01:36 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.2.32(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=amd64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 ' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='4ec4726b81d146aeacd3e9fe810a50df' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='2302652' - PS1='# ' - PS2='> ' + INVOCATION_ID=fb94f5a74ad347ea9a7104f228f10f36 + LANG=C + LANGUAGE=et_EE:et + LC_ALL=C + MACHTYPE=x86_64-pc-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=3843499 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_0dm2 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1 --logfile b1/build.log sra-sdk_3.0.9+dfsg-7.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/pbuilderrc_6cNb --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2 --logfile b2/build.log sra-sdk_3.0.9+dfsg-7.dsc' + SUDO_GID=110 + SUDO_UID=105 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.11.5+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.11.5-1~bpo12+1 (2024-11-11) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/2302652/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -514,7 +546,7 @@ Get: 351 http://deb.debian.org/debian unstable/main amd64 maven-repo-helper all 1.11 [142 kB] Get: 352 http://deb.debian.org/debian unstable/main amd64 python3.13 amd64 3.13.0-2 [730 kB] Get: 353 http://deb.debian.org/debian unstable/main amd64 python3-all amd64 3.12.7-1 [1052 B] -Fetched 306 MB in 52s (5866 kB/s) +Fetched 306 MB in 10s (30.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19966 files and directories currently installed.) @@ -1676,8 +1708,8 @@ Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' -Local time is now: Wed Dec 24 07:55:31 UTC 2025. -Universal Time is now: Wed Dec 24 07:55:31 UTC 2025. +Local time is now: Thu Nov 21 01:39:56 UTC 2024. +Universal Time is now: Thu Nov 21 01:39:56 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... @@ -2173,7 +2205,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../sra-sdk_3.0.9+dfsg-7_source.changes +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../sra-sdk_3.0.9+dfsg-7_source.changes dpkg-buildpackage: info: source package sra-sdk dpkg-buildpackage: info: source version 3.0.9+dfsg-7 dpkg-buildpackage: info: source distribution unstable @@ -2290,8 +2326,8 @@ RE2_FOUND=FALSE --- Configuring done (1.7s) --- Generating done (0.6s) +-- Configuring done (4.7s) +-- Generating done (1.7s) CMake Warning: Manually-specified variables were not used by the project: @@ -2306,9 +2342,9 @@ -- Build files have been written to: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' jh_linkjars -O--buildsystem=cmake -Duplicate specification "unlink|u" for option "u" +Duplicate specification "u=s" for option "u" dh_auto_build -O--buildsystem=cmake - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -2323,367 +2359,259 @@ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared/CMakeFiles/tk-version.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/depend make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/DependInfo.cmake "--color=" make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/DependInfo.cmake "--color=" +make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs/CMakeFiles/ngs.dir/DependInfo.cmake "--color=" -make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/depend make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/depend +make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/depend cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/DependInfo.cmake "--color=" -make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/DependInfo.cmake "--color=" -make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/depend +make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/DependInfo.cmake "--color=" -make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/depend +make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/depend +make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/DependInfo.cmake "--color=" -make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/DependInfo.cmake "--color=" -make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/depend +make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/DependInfo.cmake "--color=" -make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml/CMakeFiles/kxml.dir/DependInfo.cmake "--color=" make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader/CMakeFiles/loader.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml/CMakeFiles/kxml.dir/DependInfo.cmake "--color=" +make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/DependInfo.cmake "--color=" -make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader/CMakeFiles/loader.dir/DependInfo.cmake "--color=" make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/depend -make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose/CMakeFiles/diagnose.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/DependInfo.cmake "--color=" +make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp/CMakeFiles/ascp.dir/DependInfo.cmake "--color=" -make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/depend -make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/general-writer.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose/CMakeFiles/diagnose.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/DependInfo.cmake "--color=" -make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/depend -make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/depend -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/depend -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool/CMakeFiles/sratools.dir/DependInfo.cmake "--color=" -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui/CMakeFiles/tui.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/DependInfo.cmake "--color=" -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/DependInfo.cmake "--color=" -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/DependInfo.cmake "--color=" -make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build.make ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f shared/CMakeFiles/tk-version.dir/build.make shared/CMakeFiles/tk-version.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build.make ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/build -make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/build make -f ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build.make ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build.make ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ncbi/ngs/CMakeFiles/ngs.dir/build.make ngs/ncbi/ngs/CMakeFiles/ngs.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build.make ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build.make ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/build make -f ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build.make ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-java.dir/build.make ngs/ngs-java/CMakeFiles/ngs-java.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc_javadoc.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/kxml/CMakeFiles/kxml.dir/build.make libs/kxml/CMakeFiles/kxml.dir/build +make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javadoc -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc -sourcepath "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java" gov.nih.nlm.ncbi.ngs ngs -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/loader/CMakeFiles/loader.dir/build.make libs/loader/CMakeFiles/loader.dir/build make -f libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build.make libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/build -make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/javadoc -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc -sourcepath "/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java" gov.nih.nlm.ncbi.ngs ngs +make -f libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build.make libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ascp/CMakeFiles/ascp.dir/build.make libs/ascp/CMakeFiles/ascp.dir/build -make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/build -make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/build -make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/diagnose/CMakeFiles/diagnose.dir/build.make libs/diagnose/CMakeFiles/diagnose.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build +make -f libs/general-writer/CMakeFiles/general-writer.dir/build.make libs/general-writer/CMakeFiles/general-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 0%] Building C object shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o +make -f tools/external/vdb-config/tui/CMakeFiles/tui.dir/build.make tools/external/vdb-config/tui/CMakeFiles/tui.dir/build [ 0%] Building C object ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o [ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o -[ 0%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 1%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"shared\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o -MF CMakeFiles/tk-version.dir/toolkit.vers.c.o.d -o CMakeFiles/tk-version.dir/toolkit.vers.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers.c +[ 0%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-py\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o -MF CMakeFiles/ngs-py.dir/py_Manager.c.o.d -o CMakeFiles/ngs-py.dir/py_Manager.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py/py_Manager.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o -MF CMakeFiles/ngs-jni.dir/jni_Manager.c.o.d -o CMakeFiles/ngs-jni.dir/jni_Manager.c.o -c 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -MF CMakeFiles/ngs.dir/NCBI-NGS.c.o.d -o CMakeFiles/ngs.dir/NCBI-NGS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NCBI-NGS.c -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build -[ 2%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -[ 2%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -MF CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o.d -o CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_ErrorMsg.c -[ 3%] Building Java objects for ngs-java.jar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_AlignmentIteratorItf.cpp -[ 3%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG 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ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReferenceSequence.cpp -[ 3%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xml.c.o -MF CMakeFiles/kxml.dir/xml.c.o.d -o CMakeFiles/kxml.dir/xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xml.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"shared\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT shared/CMakeFiles/tk-version.dir/toolkit.vers.c.o -MF CMakeFiles/tk-version.dir/toolkit.vers.c.o.d -o CMakeFiles/tk-version.dir/toolkit.vers.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/shared/toolkit.vers.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 3%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build -[ 3%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c +[ 0%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o +[ 0%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadCollectionItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -MF CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_PileupEvent.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 0%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o +[ 1%] Building C object libs/loader/CMakeFiles/loader.dir/progressbar.c.o +[ 1%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o +[ 1%] Building Java objects for ngs-java.jar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadCollection.cpp +[ 2%] Building C object libs/kxml/CMakeFiles/kxml.dir/xml.c.o +[ 2%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb 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-D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadCollectionItf.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReadCollection.cpp -[ 4%] Building C object libs/ascp/CMakeFiles/ascp.dir/ascp.c.o -[ 4%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/diagnose.c.o -[ 4%] Building CXX object tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o -[ 4%] Building CXX object libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o -[ 4%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -[ 5%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/ascp.c.o -MF CMakeFiles/ascp.dir/ascp.c.o.d -o CMakeFiles/ascp.dir/ascp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/ascp.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS +cd 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CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadCollectionItf.cpp +[ 2%] Building CXX object libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadCollection.cpp -[ 5%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/ascp.c.o -MF CMakeFiles/ascp.dir/ascp.c.o.d -o CMakeFiles/ascp.dir/ascp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/ascp.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o -MF CMakeFiles/ngs.dir/NCBI-NGS.c.o.d -o CMakeFiles/ngs.dir/NCBI-NGS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NCBI-NGS.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/kxml\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xml.c.o -MF CMakeFiles/kxml.dir/xml.c.o.d -o CMakeFiles/kxml.dir/xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xml.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/general-writer.cpp.o -MF CMakeFiles/general-writer.dir/general-writer.cpp.o.d -o CMakeFiles/general-writer.dir/general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/general-writer.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -MF CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o.d -o CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/checklookup.cpp +[ 2%] Building CXX object tools/external/vdb-config/tui/CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/c++ -DLINUX 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o -MF CMakeFiles/qa-stats.dir/main.cpp.o.d -o CMakeFiles/qa-stats.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/main.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -MF CMakeFiles/sratools.dir/sratools.cpp.o.d -o CMakeFiles/sratools.dir/sratools.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp -[ 5%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -[ 5%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -[ 5%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -MF CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-build-version.cpp -[ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -MF CMakeFiles/fastqloader.dir/spot-assembler.c.o.d -o CMakeFiles/fastqloader.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/dir_dlg.c.o -MF 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CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-uuid.cpp -[ 7%] Building CXX object test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -MF CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o.d -o CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load/sam-platform.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/shared && /usr/bin/cmake -P CMakeFiles/tk-version.dir/cmake_clean_target.cmake -[ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Reference.cpp +[ 3%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -MF CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o.d -o CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/utf8-like-int-codec.c -[ 7%] Building C object libs/loader/CMakeFiles/loader.dir/loader-file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-file.c.o -MF CMakeFiles/loader.dir/loader-file.c.o.d -o CMakeFiles/loader.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-file.c -[ 7%] Linking C static library ../../../ilib/libngs-jni.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -P CMakeFiles/ngs-jni.dir/cmake_clean_target.cmake -[ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -[ 7%] Linking C static library ../../../ilib/libngs-py.a +[ 3%] Linking C static library ../../../ilib/libngs-py.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -P CMakeFiles/ngs-py.dir/cmake_clean_target.cmake /usr/bin/ar qc ../ilib/libtk-version.a "CMakeFiles/tk-version.dir/toolkit.vers.c.o" /usr/bin/ranlib ../ilib/libtk-version.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -P CMakeFiles/ngs-py.dir/cmake_clean_target.cmake +[ 3%] Building C object libs/loader/CMakeFiles/loader.dir/loader-file.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-jni.dir/link.txt --verbose=1 -[ 7%] Built target tk-version +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/loader-file.c.o -MF CMakeFiles/loader.dir/loader-file.c.o.d -o CMakeFiles/loader.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-file.c +[ 3%] Building C object ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-jni\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o -MF CMakeFiles/ngs-jni.dir/jni_String.c.o.d -o CMakeFiles/ngs-jni.dir/jni_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_String.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-py && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-py.dir/link.txt --verbose=1 -[ 7%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -MF CMakeFiles/diagnose.dir/endpoint.c.o.d -o CMakeFiles/diagnose.dir/endpoint.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose/endpoint.c -[ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -MF CMakeFiles/tui.dir/eventring.c.o.d -o CMakeFiles/tui.dir/eventring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/eventring.c +[ 3%] Built target tk-version +make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool/CMakeFiles/sratools.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/driver-tool/CMakeFiles/sratools.dir/build.make tools/external/driver-tool/CMakeFiles/sratools.dir/build /usr/bin/ar qc ../../../ilib/libngs-py.a "CMakeFiles/ngs-py.dir/py_Manager.c.o" /usr/bin/ranlib ../../../ilib/libngs-py.a -/usr/bin/ar qc ../../../ilib/libngs-jni.a "CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "CMakeFiles/ngs-jni.dir/jni_String.c.o" "CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" -/usr/bin/ranlib ../../../ilib/libngs-jni.a +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 3%] Built target ngs-py +make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/depend +[ 3%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/sratools.cpp.o -MF CMakeFiles/sratools.dir/sratools.cpp.o.d -o CMakeFiles/sratools.dir/sratools.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.cpp +[ 3%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/eventring.c.o -MF CMakeFiles/tui.dir/eventring.c.o.d -o CMakeFiles/tui.dir/eventring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/eventring.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info/CMakeFiles/sra-info.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 7%] Built target ngs-py -[ 7%] Built target ngs-jni -[ 7%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -[ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -MF CMakeFiles/qa-stats.dir/input.cpp.o.d -o CMakeFiles/qa-stats.dir/input.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/input.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlobIterator.cpp -[ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o +make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 3%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/main.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -MF CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o.d -o CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni/jni_ErrorMsg.c +[ 3%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/file_dlg.c.o -MF CMakeFiles/tui.dir/file_dlg.c.o.d -o CMakeFiles/tui.dir/file_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/file_dlg.c -[ 7%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 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CMakeFiles/kxml.dir/xtoc.c.o.d -o CMakeFiles/kxml.dir/xtoc.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc.c -[ 7%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o +[ 4%] Linking C static library ../../../ilib/libngs-jni.a +[ 4%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-jni && /usr/bin/cmake -P CMakeFiles/ngs-jni.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/loader-meta.c +/usr/bin/ar qc ../../../ilib/libngs-jni.a "CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "CMakeFiles/ngs-jni.dir/jni_String.c.o" "CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" +/usr/bin/ranlib ../../../ilib/libngs-jni.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 4%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_AlignmentIteratorItf.cpp +[ 4%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlobIterator.cpp +[ 4%] Built target ngs-jni +[ 4%] Building C object libs/kxml/CMakeFiles/kxml.dir/xtoc-parsexml.c.o +[ 4%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc-parsexml.c -[ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/PileupEventItf.cpp -[ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 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-fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceSequenceItf.cpp -[ 7%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -MF CMakeFiles/sratools.dir/config.cpp.o.d -o CMakeFiles/sratools.dir/config.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/config.cpp -[ 7%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -MF CMakeFiles/ngs.dir/CSRA1_Reference.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Reference.c -[ 7%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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-DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o -MF CMakeFiles/ngs.dir/CSRA1_Pileup.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Pileup.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader/CMakeFiles/samview.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build +make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 7%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupIterator.cpp -[ 7%] Building C object libs/loader/CMakeFiles/loader.dir/loader-meta.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/queue-file.c.o -MF CMakeFiles/loader.dir/queue-file.c.o.d -o CMakeFiles/loader.dir/queue-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/queue-file.c -[ 7%] Building CXX object libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -MF CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o.d -o CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_makedb.cpp -[ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.cpp:36, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp:39: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +[ 4%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o -MF 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/libxml2 -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/kxml/CMakeFiles/kxml.dir/xtoc.c.o -MF CMakeFiles/kxml.dir/xtoc.c.o.d -o CMakeFiles/kxml.dir/xtoc.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/kxml/xtoc.c +[ 5%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/screen.c.o -MF CMakeFiles/tui.dir/screen.c.o.d -o CMakeFiles/tui.dir/screen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/screen.c -[ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o +[ 5%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o -MF 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o -MF CMakeFiles/ascp.dir/linux/ascp-path.c.o.d -o CMakeFiles/ascp.dir/linux/ascp-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/linux/ascp-path.c +[ 6%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReferenceIterator.cpp +Constructing Javadoc information... +[ 6%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/FragmentBlob.cpp +[ 6%] Building C object libs/loader/CMakeFiles/loader.dir/alignment-writer.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 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/usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-reader.c.o -MF CMakeFiles/loader.dir/common-reader.c.o.d -o CMakeFiles/loader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-reader.c +[ 6%] Linking CXX static library ../../../../ilib/libtui_cpp.a +cd 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/ascp/CMakeFiles/ascp.dir/linux/ascp-path.c.o -MF CMakeFiles/ascp.dir/linux/ascp-path.c.o.d -o CMakeFiles/ascp.dir/linux/ascp-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ascp/linux/ascp-path.c -[ 9%] Linking CXX static library ../../../../ilib/libtui_cpp.a -[ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui_cpp.dir/cmake_clean_target.cmake -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && 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ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Pileup.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_BamLoader_platform.dir/link.d "CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o" -o ../../../test-bin/Test_BamLoader_platform -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 6%] Linking C static library ../../ilib/libascp.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -P CMakeFiles/ascp.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui_cpp.dir/link.txt --verbose=1 -[ 9%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o +[ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/string_cache.c.o -MF CMakeFiles/tui.dir/string_cache.c.o.d -o CMakeFiles/tui.dir/string_cache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/string_cache.c -[ 9%] Built target Test_BamLoader_platform -[ 9%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o -MF CMakeFiles/ngs.dir/CSRA1_Read.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Read.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ascp.dir/link.txt --verbose=1 /usr/bin/ar qc ../../../../ilib/libtui_cpp.a CMakeFiles/tui_cpp.dir/tui_cpp.cpp.o /usr/bin/ranlib ../../../../ilib/libtui_cpp.a -[ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/EBI_ReferenceSequence.c -[ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -MF CMakeFiles/ngs.dir/SRA_Statistics.c.o.d -o CMakeFiles/ngs.dir/SRA_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Statistics.c -[ 10%] Built target tui_cpp -[ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char 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-I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/AlignmentItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceSequenceItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ascp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ascp.dir/link.txt --verbose=1 -[ 10%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupIteratorItf.cpp /usr/bin/ar qc ../../ilib/libascp.a CMakeFiles/ascp.dir/ascp.c.o CMakeFiles/ascp.dir/unix/connect.c.o "CMakeFiles/ascp.dir/linux/ascp-path.c.o" /usr/bin/ranlib ../../ilib/libascp.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 10%] Building C object libs/loader/CMakeFiles/loader.dir/common-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-writer.c.o -MF CMakeFiles/loader.dir/common-writer.c.o.d -o CMakeFiles/loader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-writer.c -[ 10%] Built target ascp -[ 10%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadGroupItf.cpp -[ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupIteratorItf.cpp -[ 10%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -MF CMakeFiles/fastqloader.dir/sequence-writer.c.o.d -o CMakeFiles/fastqloader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c -[ 10%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupItf.cpp -[ 10%] Linking CXX executable ../../../test-bin/Test_Drivertool_BuildVersion -Loading source files for package gov.nih.nlm.ncbi.ngs... -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_BuildVersion.dir/link.txt --verbose=1 -[ 10%] Linking C static library ../../ilib/libkxml.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -P CMakeFiles/kxml.dir/cmake_clean_target.cmake -Loading source files for package ngs... -[ 10%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -MF CMakeFiles/tui.dir/tui.c.o.d -o CMakeFiles/tui.dir/tui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -E cmake_link_script CMakeFiles/kxml.dir/link.txt --verbose=1 -[ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -MF CMakeFiles/fastqloader.dir/common-reader.c.o.d -o CMakeFiles/fastqloader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c -[ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -MF CMakeFiles/fastqloader.dir/fastq-reader.c.o.d -o CMakeFiles/fastqloader.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c -[ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c -/usr/bin/ar qc ../../ilib/libkxml.a CMakeFiles/kxml.dir/xml.c.o "CMakeFiles/kxml.dir/xtoc-parsexml.c.o" CMakeFiles/kxml.dir/xtoc.c.o -/usr/bin/ranlib ../../ilib/libkxml.a -[ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 12%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReference.cpp -[ 12%] Built target kxml -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_BuildVersion.dir/link.d "CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o" -o ../../../test-bin/Test_Drivertool_BuildVersion -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 12%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -MF CMakeFiles/fastqloader.dir/id2name.c.o.d -o CMakeFiles/fastqloader.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c -[ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_DB_ReadCollection.c -[ 12%] Built target Test_Drivertool_BuildVersion -[ 12%] Linking CXX executable ../../../test-bin/Test_Drivertool_UUID -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_UUID.dir/link.txt --verbose=1 -[ 12%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/AlignmentItf.cpp -[ 12%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlob.cpp -[ 12%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEventIterator.cpp -[ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -[ 12%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroup.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -MF CMakeFiles/ngs.dir/SRA_Read.c.o.d -o CMakeFiles/ngs.dir/SRA_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Read.c -[ 12%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o -[ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o -MF CMakeFiles/tui.dir/tui_dlg.c.o.d -o CMakeFiles/tui.dir/tui_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventIteratorItf.cpp -make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/depend -[ 12%] Linking CXX executable ../../../test-bin/Test_Drivertool_Accession -[ 12%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_Accession.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o -MF CMakeFiles/sratools.dir/command-line.cpp.o.d -o CMakeFiles/sratools.dir/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/fastq-dump.dir/DependInfo.cmake "--color=" -[ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventItf.cpp -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build -[ 12%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentIteratorItf.cpp -[ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o +[ 6%] Built target tui_cpp +[ 6%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o +make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReferenceItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o -MF CMakeFiles/sratools.dir/run-source.cpp.o.d -o CMakeFiles/sratools.dir/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp -[ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadCollectionItf.cpp -[ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -[ 13%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/factory.c.o -MF CMakeFiles/fastq-dump.dir/factory.c.o.d -o CMakeFiles/fastq-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c -[ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEvent.cpp -[ 13%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o -MF CMakeFiles/fastq-dump.dir/fasta_dump.c.o.d -o CMakeFiles/fastq-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c -[ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/AlignmentIterator.cpp -[ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -MF CMakeFiles/sratools.dir/proc.cpp.o.d -o CMakeFiles/sratools.dir/proc.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_UUID.dir/link.d "CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o" -o ../../../test-bin/Test_Drivertool_UUID -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 14%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadItf.cpp -[ 14%] Built target Test_Drivertool_UUID -[ 14%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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CMakeFiles/fastq-dump.dir/core.c.o.d -o CMakeFiles/fastq-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c -[ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o -MF CMakeFiles/sratools.dir/uuid.cpp.o.d -o CMakeFiles/sratools.dir/uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/uuid.cpp -[ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroup.cpp -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 1011 | ReportBuildDate ( __DATE__ ); - | ^~~~~~~~ -[ 15%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX 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tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar.dir/DependInfo.cmake "--color=" +[ 6%] Built target ascp +make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/sff-dump.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+.dir/DependInfo.cmake "--color=" +[ 6%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/build +make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 15%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -[ 15%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupIteratorItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c -[ 15%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlobIterator.cpp -[ 16%] Linking CXX executable ../../../test-bin/ngs-makedb -[ 16%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-makedb.dir/link.txt --verbose=1 -[ 16%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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-I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadItf.cpp -[ 16%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -[ 16%] Linking CXX executable ../../../../../test-bin/idx-text-checklookup -cd 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CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadIteratorItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-checklookup.dir/link.txt --verbose=1 -[ 16%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadGroupItf.cpp -[ 16%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StatisticsItf.cpp -[ 16%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/FragmentItf.cpp -[ 16%] Building C object libs/loader/CMakeFiles/loader.dir/mmarray.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/mmarray.c.o -MF CMakeFiles/loader.dir/mmarray.c.o.d -o CMakeFiles/loader.dir/mmarray.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/mmarray.c -[ 16%] Linking C static library ../../../ilib/libfastqloader.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -P CMakeFiles/fastqloader.dir/cmake_clean_target.cmake -[ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentItf.cpp -[ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/StringItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastqloader.dir/link.txt --verbose=1 -[ 17%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -MF CMakeFiles/fastq-dump.dir/fastq.c.o.d -o CMakeFiles/fastq-dump.dir/fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fastq.c -[ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/Refcount.cpp -[ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadItf.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-makedb.dir/link.d "CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o" -o ../../../test-bin/ngs-makedb -Wl,-Bstatic -lktst -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-checklookup.dir/link.d "CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o" -o ../../../../../test-bin/idx-text-checklookup /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 17%] Built target idx-text-checklookup -[ 17%] Built target ngs-makedb -[ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -[ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadCollection.c -/usr/bin/ar qc ../../../ilib/libfastqloader.a "CMakeFiles/fastqloader.dir/spot-assembler.c.o" "CMakeFiles/fastqloader.dir/common-writer.c.o" "CMakeFiles/fastqloader.dir/sequence-writer.c.o" "CMakeFiles/fastqloader.dir/common-reader.c.o" "CMakeFiles/fastqloader.dir/fastq-reader.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o" CMakeFiles/fastqloader.dir/id2name.c.o -/usr/bin/ranlib ../../../ilib/libfastqloader.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbAlignment.cpp -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 17%] Linking CXX static library ../../ilib/libgeneral-writer.a -[ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -P CMakeFiles/general-writer.dir/cmake_clean_target.cmake -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrorMsg.cpp -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void printEnvironment(bool)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' - 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void testing_5()': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { - | ^ -[ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' - 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/FragmentItf.cpp -[ 17%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -MF CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o.d -o CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/NGS-VDB.cpp -[ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -[ 17%] Built target fastqloader -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReferenceSequence.c -[ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -[ 17%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StatisticsItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/FragmentIterator.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-writer.dir/link.txt --verbose=1 -[ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrBlock.cpp -[ 17%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -MF CMakeFiles/ngs.dir/NGS_Statistics.c.o.d -o CMakeFiles/ngs.dir/NGS_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Statistics.c -[ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Fragment.cpp -/usr/bin/ar qc ../../ilib/libgeneral-writer.a "CMakeFiles/general-writer.dir/general-writer.cpp.o" "CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o" -/usr/bin/ranlib ../../ilib/libgeneral-writer.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Statistics.cpp -[ 17%] Built target general-writer -[ 17%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb 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CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupIteratorItf.cpp -[ 18%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PackageItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PackageItf.cpp -[ 18%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o -MF CMakeFiles/sff-dump.dir/fasta_dump.c.o.d -o CMakeFiles/sff-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c -[ 18%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupItf.cpp -[ 18%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceItf.cpp -[ 18%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o -MF CMakeFiles/sff-dump.dir/core.c.o.d -o CMakeFiles/sff-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c -[ 18%] Linking C static library ../../ilib/libdiagnose.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -P CMakeFiles/diagnose.dir/cmake_clean_target.cmake -ngs/itf/Refcount.java:57: warning: [removal] finalize() in Object has been deprecated and marked for removal - protected void finalize () - ^ -[ 18%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -E cmake_link_script CMakeFiles/diagnose.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o -MF CMakeFiles/sratools.dir/service.cpp.o.d -o CMakeFiles/sratools.dir/service.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/service.cpp -make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/illumina-dump.dir/DependInfo.cmake "--color=" -[ 18%] Building C object libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -MF CMakeFiles/loader.dir/reference-writer.c.o.d -o CMakeFiles/loader.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/reference-writer.c -make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/depend -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': +make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/abi-dump.dir/DependInfo.cmake "--color=" -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 1011 | ReportBuildDate ( __DATE__ ); - | ^~~~~~~~ +[ 6%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -MF CMakeFiles/kar.dir/kar-path.c.o.d -o CMakeFiles/kar.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c +[ 6%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o -MF CMakeFiles/kar+.dir/kar-path.c.o.d -o CMakeFiles/kar+.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c +[ 6%] Building C object libs/loader/CMakeFiles/loader.dir/common-reader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-reader.c.o -MF CMakeFiles/loader.dir/common-reader.c.o.d -o CMakeFiles/loader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-reader.c +[ 6%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui.c.o -MF CMakeFiles/tui.dir/tui.c.o.d -o CMakeFiles/tui.dir/tui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui.c +[ 6%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -MF CMakeFiles/kar.dir/kar-args.c.o.d -o CMakeFiles/kar.dir/kar-args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-args.c +[ 6%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -MF CMakeFiles/kar+.dir/kar+args.c.o.d -o CMakeFiles/kar+.dir/kar+args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+args.c +[ 6%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Reference.cpp +[ 6%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -MF CMakeFiles/ngs.dir/CSRA1_Alignment.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Alignment.c +[ 6%] Linking C static library ../../ilib/libkxml.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -P CMakeFiles/kxml.dir/cmake_clean_target.cmake +[ 6%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_FragmentIteratorItf.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/kxml && /usr/bin/cmake -E cmake_link_script CMakeFiles/kxml.dir/link.txt --verbose=1 +[ 7%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbReference.cpp +[ 7%] Building C object libs/loader/CMakeFiles/loader.dir/common-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/common-writer.c.o -MF CMakeFiles/loader.dir/common-writer.c.o.d -o CMakeFiles/loader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/common-writer.c +/usr/bin/ar qc ../../ilib/libkxml.a CMakeFiles/kxml.dir/xml.c.o "CMakeFiles/kxml.dir/xtoc-parsexml.c.o" CMakeFiles/kxml.dir/xtoc.c.o +/usr/bin/ranlib ../../ilib/libkxml.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build +[ 7%] Built target kxml +make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/ar qc ../../ilib/libdiagnose.a CMakeFiles/diagnose.dir/diagnose.c.o CMakeFiles/diagnose.dir/endpoint.c.o -/usr/bin/ranlib ../../ilib/libdiagnose.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+meta.dir/DependInfo.cmake "--color=" +[ 7%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg.c.o -MF CMakeFiles/tui.dir/tui_dlg.c.o.d -o CMakeFiles/tui.dir/tui_dlg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/build +make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 18%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o -MF CMakeFiles/sratools.dir/SDL-response.cpp.o.d -o CMakeFiles/sratools.dir/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o -MF CMakeFiles/abi-dump.dir/factory.c.o.d -o CMakeFiles/abi-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c -[ 18%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o -[ 18%] Built target diagnose -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp:36: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -MF CMakeFiles/ngs.dir/NGS_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReadCollection.c -[ 19%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/tool-args.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/tool-args.cpp.o -MF CMakeFiles/sratools.dir/tool-args.cpp.o.d -o CMakeFiles/sratools.dir/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp -[ 19%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o -MF CMakeFiles/sratools.dir/build-version.cpp.o.d -o CMakeFiles/sratools.dir/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp -[ 19%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o -MF CMakeFiles/sratools.dir/file-path.posix.cpp.o.d -o CMakeFiles/sratools.dir/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp +[ 7%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o -MF CMakeFiles/kar+.dir/kar+print.c.o.d -o CMakeFiles/kar+.dir/kar+print.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+print.c +[ 7%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -MF CMakeFiles/kar+meta.dir/kar+util.c.o.d -o CMakeFiles/kar+meta.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c +[ 7%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -MF CMakeFiles/kar.dir/kar.c.o.d -o CMakeFiles/kar.dir/kar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar.c Creating destination directory: "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/" -[ 20%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o -cd 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21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o -MF CMakeFiles/tui.dir/tui_menu.c.o.d -o CMakeFiles/tui.dir/tui_menu.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_menu.c -make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/depend -make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build.make tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/inputfiles.c.o -MF CMakeFiles/sam-dump.dir/inputfiles.c.o.d -o CMakeFiles/sam-dump.dir/inputfiles.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/inputfiles.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o -MF CMakeFiles/tui.dir/tui_widget.c.o.d -o CMakeFiles/tui.dir/tui_widget.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget.c -[ 22%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -[ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o +[ 7%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReferenceSequenceItf.cpp +[ 7%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReferenceSequenceItf.cpp Building index for all the packages and classes... -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StringItf.cpp -[ 22%] Linking CXX executable ../../../test-bin/Test_Drivertool_CommandLine -[ 22%] Linking CXX static library ../../../ilib/libngs-adapt-c++.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -P CMakeFiles/ngs-adapt-c++.dir/cmake_clean_target.cmake -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_CommandLine.dir/link.txt --verbose=1 -[ 22%] Linking CXX static library ../../ilib/libngs-vdb.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -P CMakeFiles/ngs-vdb.dir/cmake_clean_target.cmake Standard Doclet version 21.0.5+11-Debian-1 Building tree for all the packages and classes... -[ 22%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -MF CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o.d -o CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cmdline_cmn.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/DependInfo.cmake "--color=" -[ 23%] Building C object libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -MF CMakeFiles/loader.dir/sequence-writer.c.o.d -o CMakeFiles/loader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/sequence-writer.c -[ 23%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -MF CMakeFiles/sra-pileup.dir/out_redir.c.o.d -o CMakeFiles/sra-pileup.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-vdb.dir/link.txt --verbose=1 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 23%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -[ 23%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -MF CMakeFiles/fasterq-dump.dir/helper.c.o.d -o CMakeFiles/fasterq-dump.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/helper.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -MF CMakeFiles/ngs.dir/NGS_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_PileupEvent.c -/usr/bin/ar qc ../../../ilib/libngs-adapt-c++.a "CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o" -/usr/bin/ranlib ../../../ilib/libngs-adapt-c++.a -make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o -MF CMakeFiles/sra-pileup.dir/perf_log.c.o.d -o CMakeFiles/sra-pileup.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o -MF CMakeFiles/ngs.dir/NGS_Pileup.c.o.d -o CMakeFiles/ngs.dir/NGS_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Pileup.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -P CMakeFiles/ngs-bind-c++.dir/cmake_clean_target.cmake -[ 23%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -cd 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-c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadIteratorItf.cpp -[ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC 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"CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o" "CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o" -/usr/bin/ranlib ../../ilib/libngs-vdb.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-c++.dir/link.txt --verbose=1 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 24%] Built target ngs-vdb -[ 24%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -[ 24%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o -MF CMakeFiles/abi-dump.dir/fasta_dump.c.o.d -o 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-MF CMakeFiles/fasterq-dump.dir/arg_helper.c.o.d -o CMakeFiles/fasterq-dump.dir/arg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/arg_helper.c -[ 24%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StatisticsItf.cpp -[ 24%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -MF CMakeFiles/sam-dump.dir/rna_splice_log.c.o.d -o CMakeFiles/sam-dump.dir/rna_splice_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/rna_splice_log.c -[ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceSequenceItf.cpp -/usr/bin/ar qc ../../../../ilib/libngs-bind-c++.a "CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" -/usr/bin/ranlib ../../../../ilib/libngs-bind-c++.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_CommandLine.dir/link.d "CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o" -o ../../../test-bin/Test_Drivertool_CommandLine -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 24%] Built target Test_Drivertool_CommandLine -[ 24%] Built target ngs-bind-c++ +[ 7%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o +cd 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o -MF CMakeFiles/sam-dump.dir/sam-dump-opts.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump-opts.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump-opts.c -[ 24%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StringItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/loader.dir/link.txt --verbose=1 -[ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 1011 | ReportBuildDate ( __DATE__ ); - | ^~~~~~~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_Refcount.cpp -[ 24%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o -MF CMakeFiles/sam-dump.dir/out_redir.c.o.d -o CMakeFiles/sam-dump.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c: In function 'tctx_extract_short_accession': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c:348:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 348 | ReportBuildDate( __DATE__ ); - | ^~~~~~~~ -[ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ErrBlock.cpp -[ 25%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c -[ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr1.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr1.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-hdr1.c -/usr/bin/ar qc ../../ilib/libloader.a CMakeFiles/loader.dir/progressbar.c.o "CMakeFiles/loader.dir/loader-file.c.o" "CMakeFiles/loader.dir/loader-meta.c.o" "CMakeFiles/loader.dir/queue-file.c.o" "CMakeFiles/loader.dir/alignment-writer.c.o" "CMakeFiles/loader.dir/common-reader.c.o" "CMakeFiles/loader.dir/common-writer.c.o" CMakeFiles/loader.dir/mmarray.c.o "CMakeFiles/loader.dir/reference-writer.c.o" "CMakeFiles/loader.dir/sequence-writer.c.o" -/usr/bin/ranlib ../../ilib/libloader.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 25%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -[ 25%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -MF CMakeFiles/tui.dir/tui_widget_grid.c.o.d -o CMakeFiles/tui.dir/tui_widget_grid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_grid.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -MF CMakeFiles/ngs.dir/NGS_Alignment.c.o.d -o CMakeFiles/ngs.dir/NGS_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Alignment.c -[ 25%] Built target loader -[ 25%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb 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/usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o -MF CMakeFiles/sam-dump.dir/matecache.c.o.d -o CMakeFiles/sam-dump.dir/matecache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/matecache.c -[ 25%] Linking C executable ../../../bin/sff-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-dump.dir/link.txt --verbose=1 -[ 25%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/core.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o -MF CMakeFiles/abi-dump.dir/abi.c.o.d -o CMakeFiles/abi-dump.dir/abi.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/abi.c +[ 8%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupIterator.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:140: warning: no comment static int all = primaryAlignment | secondaryAlignment; ^ @@ -3246,204 +2754,53 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Alignment.java:134: warning: no comment static int startWithinSlice = 32; // change slice intersection criteria so that start pos is within slice ^ -[ 25%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o -cd 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-I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o -MF CMakeFiles/sra-pileup.dir/report_deletes.c.o.d -o CMakeFiles/sra-pileup.dir/report_deletes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/report_deletes.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o -MF CMakeFiles/fasterq-dump.dir/sbuffer.c.o.d -o 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-Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o -MF CMakeFiles/sam-dump.dir/sam-aligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-aligned.c -[ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-dump.dir/link.d "CMakeFiles/sff-dump.dir/factory.c.o" "CMakeFiles/sff-dump.dir/fasta_dump.c.o" "CMakeFiles/sff-dump.dir/core.c.o" "CMakeFiles/sff-dump.dir/sff.c.o" -o ../../../bin/sff-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -MF CMakeFiles/fasterq-dump.dir/file_tools.c.o.d -o CMakeFiles/fasterq-dump.dir/file_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_tools.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-dump sff-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3.0.9 sff-dump.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3 sff-dump -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 26%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX 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tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o -[ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -MF CMakeFiles/ngs.dir/NGS_Reference.c.o.d -o CMakeFiles/ngs.dir/NGS_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Reference.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o -MF CMakeFiles/fasterq-dump.dir/flex_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/flex_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/flex_printer.c -[ 26%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o -MF CMakeFiles/tui.dir/tui_widget_label.c.o.d -o CMakeFiles/tui.dir/tui_widget_label.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_label.c -[ 26%] Built target sff-dump -[ 26%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ErrorMsg.cpp -make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/depend -[ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o -MF CMakeFiles/tui.dir/tui_widget_progress.c.o.d -o CMakeFiles/tui.dir/tui_widget_progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_progress.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build -[ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o -MF CMakeFiles/ngs.dir/NGS_Read.c.o.d -o CMakeFiles/ngs.dir/NGS_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Read.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 27%] Linking CXX static library ../../../../ilib/libngs-bind-python.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -P CMakeFiles/ngs-bind-python.dir/cmake_clean_target.cmake -[ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceSequence.c -[ 27%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/main.c.o -[ 27%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/main.c -[ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o -MF CMakeFiles/ngs.dir/NGS_Fragment.c.o.d -o CMakeFiles/ngs.dir/NGS_Fragment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Fragment.c -make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-python.dir/link.txt --verbose=1 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/DependInfo.cmake "--color=" -[ 28%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC 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-I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_FragmentItf.cpp -[ 28%] Building CXX object tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -MF CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o.d -o CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-corrupt.cpp -[ 28%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o -MF CMakeFiles/sra-pileup.dir/4na_ascii.c.o.d -o CMakeFiles/sra-pileup.dir/4na_ascii.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/4na_ascii.c -/usr/bin/ar qc ../../../../ilib/libngs-bind-python.a "CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" -/usr/bin/ranlib ../../../../ilib/libngs-bind-python.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/DependInfo.cmake "--color=" -[ 28%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -MF CMakeFiles/tui.dir/tui_widget_spin_edit.c.o.d -o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_spin_edit.c -[ 28%] Built target ngs-bind-python -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build -[ 28%] Building C object 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o -MF CMakeFiles/vdb-validate.dir/check-redact.c.o.d -o CMakeFiles/vdb-validate.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-redact.c -[ 29%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-tools.c -make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/DependInfo.cmake "--color=" -[ 29%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o -make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/depend -[ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o -MF CMakeFiles/vdb-validate.dir/vdb-validate.c.o.d -o CMakeFiles/vdb-validate.dir/vdb-validate.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/vdb-validate.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath/CMakeFiles/srapath.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -MF CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o.d -o CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-decrypt.c -make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/depend -make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat/CMakeFiles/sra-stat.dir/DependInfo.cmake "--color=" +[ 8%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -MF CMakeFiles/kar+meta.dir/kar+meta.c.o.d -o CMakeFiles/kar+meta.dir/kar+meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+meta.c +[ 8%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlob.cpp +[ 8%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o +cd 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Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -MF CMakeFiles/sra-info.dir/sra-info.cpp.o.d -o CMakeFiles/sra-info.dir/sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/sra-info.cpp +[ 8%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReferenceWindow.c +[ 8%] Building C object libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/AlignmentIterator.html... -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -MF CMakeFiles/tui.dir/tui_widget_tabhdr.c.o.d -o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_tabhdr.c -make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 29%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o -MF CMakeFiles/sra-stat.dir/assembly-statistics.c.o.d -o CMakeFiles/sra-stat.dir/assembly-statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/assembly-statistics.c +[ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o +[ 8%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupItf.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/general-writer/CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -MF CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o.d -o CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/utf8-like-int-codec.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o -MF CMakeFiles/kar+.dir/kar+.c.o.d -o CMakeFiles/kar+.dir/kar+.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+.c +[ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ErrorMsg.html... -[ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -MF CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o.d -o CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-encrypt.c -[ 29%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o -MF CMakeFiles/srapath.dir/helper.c.o.d -o CMakeFiles/srapath.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/helper.c -[ 29%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -[ 30%] Building C object tools/external/rcexplain/CMakeFiles/rcexplain.dir/rcexplain.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -MF CMakeFiles/vdb-decrypt.dir/shared.c.o.d -o CMakeFiles/vdb-decrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/rcexplain/CMakeFiles/rcexplain.dir/rcexplain.c.o -MF CMakeFiles/rcexplain.dir/rcexplain.c.o.d -o CMakeFiles/rcexplain.dir/rcexplain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain/rcexplain.c -[ 30%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -[ 30%] Linking C executable ../../../bin/fastq-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -MF CMakeFiles/vdb-encrypt.dir/shared.c.o.d -o CMakeFiles/vdb-encrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-dump.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupIteratorItf.cpp +[ 8%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:38: warning: no main description +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupEventItf.cpp * @return What went wrong ^ -[ 31%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -[ 31%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o -MF CMakeFiles/fasterq-dump.dir/temp_dir.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_dir.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:49: warning: no comment public ErrorMsg () ^ -[ 31%] Linking CXX static library ../../../ilib/libngs-disp.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -P CMakeFiles/ngs-disp.dir/cmake_clean_target.cmake +[ 8%] Building C object libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:53: warning: no comment public ErrorMsg ( String message ) ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ErrorMsg.java:58: warning: no comment public ErrorMsg ( ErrorMsg obj ) ^ -[ 31%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -MF CMakeFiles/fasterq-dump.dir/progress_thread.c.o.d -o CMakeFiles/fasterq-dump.dir/progress_thread.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/progress_thread.c -[ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o -MF CMakeFiles/srapath.dir/line_iter.c.o.d -o CMakeFiles/srapath.dir/line_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/line_iter.c -[ 32%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o -MF CMakeFiles/sra-stat.dir/sra.c.o.d -o CMakeFiles/sra-stat.dir/sra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-disp.dir/link.txt --verbose=1 -[ 32%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o -MF CMakeFiles/tui.dir/linux/systui.c.o.d -o CMakeFiles/tui.dir/linux/systui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/linux/systui.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/ascp\" -Dx86_64 -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/diagnose/CMakeFiles/diagnose.dir/endpoint.c.o -MF CMakeFiles/diagnose.dir/endpoint.c.o.d -o CMakeFiles/diagnose.dir/endpoint.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/diagnose/endpoint.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Fragment.html... -[ 32%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o -MF CMakeFiles/sra-stat.dir/sra-stat.c.o.d -o CMakeFiles/sra-stat.dir/sra-stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra-stat.c -[ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Package.cpp -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-dump.dir/link.d "CMakeFiles/fastq-dump.dir/factory.c.o" "CMakeFiles/fastq-dump.dir/fasta_dump.c.o" "CMakeFiles/fastq-dump.dir/core.c.o" "CMakeFiles/fastq-dump.dir/fastq.c.o" -o ../../../bin/fastq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-dump fastq-dump.3.0.9 -[ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -[ 32%] Linking C executable ../../../bin/illumina-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3.0.9 fastq-dump.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-dump.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_StatisticsItf.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3 fastq-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fastq-dump-driver -[ 32%] Linking C executable ../../../bin/rcexplain -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cmake -E cmake_link_script CMakeFiles/rcexplain.dir/link.txt --verbose=1 -[ 32%] Built target fastq-dump -/usr/bin/ar qc ../../../ilib/libngs-disp.a "CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "CMakeFiles/ngs-disp.dir/VTable.cpp.o" "CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" -/usr/bin/ranlib ../../../ilib/libngs-disp.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker.c +[ 8%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -MF CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o.d -o CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/ReferenceBlobIterator.cpp +[ 8%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Pileup.cpp Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/FragmentIterator.html... -[ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o -MF CMakeFiles/srapath.dir/repository-mgr.c.o.d -o CMakeFiles/srapath.dir/repository-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/repository-mgr.c -[ 32%] Built target ngs-disp +[ 8%] Linking C static library ../../ilib/libdiagnose.a Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/LibDependencies.html... -[ 32%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_String.cpp +[ 8%] Linking CXX static library ../../ilib/libgeneral-writer.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -P CMakeFiles/diagnose.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -P CMakeFiles/general-writer.dir/cmake_clean_target.cmake /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: no comment public class LibDependencies { ^ @@ -3453,142 +2810,78 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:30: warning: no comment public final static String NGS_SDK = "ngs-sdk"; ^ -[ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/services.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/LibDependencies.java:29: warning: use of default constructor, which does not provide a comment public class LibDependencies { ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/services.c.o -MF CMakeFiles/srapath.dir/services.c.o.d -o CMakeFiles/srapath.dir/services.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/services.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c: In function 'insp_report': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:1165:14: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized] - 1165 | rc = KOutMsg( "... is %s\n", s_acc_type ); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:248:18: note: 'res' was declared here - 248 | const char * res; - | ^~~ -[ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -MF CMakeFiles/srapath.dir/cgi_request.c.o.d -o CMakeFiles/srapath.dir/cgi_request.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/cgi_request.c -[ 32%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o -MF CMakeFiles/srapath.dir/srapath.c.o.d -o CMakeFiles/srapath.dir/srapath.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/srapath.c -[ 32%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o -MF CMakeFiles/ngs.dir/NGS_Refcount.c.o.d -o CMakeFiles/ngs.dir/NGS_Refcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Refcount.c -[ 32%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o -MF CMakeFiles/sam-dump.dir/sam-unaligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-unaligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-unaligned.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/NGS.html... -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rcexplain.dir/link.d CMakeFiles/rcexplain.dir/rcexplain.c.o -o ../../../bin/rcexplain /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-dump.dir/link.d "CMakeFiles/illumina-dump.dir/factory.c.o" "CMakeFiles/illumina-dump.dir/fasta_dump.c.o" "CMakeFiles/illumina-dump.dir/core.c.o" "CMakeFiles/illumina-dump.dir/illumina.c.o" -o ../../../bin/illumina-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -[ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Refcount.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rcexplain.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rcexplain rcexplain.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-dump illumina-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3.0.9 illumina-dump.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3.0.9 rcexplain.3 -[ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ErrorMsg.cpp -[ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3 illumina-dump -[ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: no comment public class NGS ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o -MF CMakeFiles/ngs.dir/NGS_Id.c.o.d -o CMakeFiles/ngs.dir/NGS_Id.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Id.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3 rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:40: warning: use of default constructor, which does not provide a comment public class NGS ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -MF CMakeFiles/ngs.dir/NGS_String.c.o.d -o CMakeFiles/ngs.dir/NGS_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_String.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 8%] Linking C executable ../../../bin/kar +[ 8%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_dlg_helper.c.o -MF CMakeFiles/tui.dir/tui_dlg_helper.c.o.d -o CMakeFiles/tui.dir/tui_dlg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_dlg_helper.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/gov/nih/nlm/ncbi/ngs/NGS.java:133: warning: no comment public static void main(String[] args) { ^ -[ 33%] Built target illumina-dump -[ 33%] Linking C executable ../../../bin/abi-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-dump.dir/link.txt --verbose=1 -[ 33%] Built target rcexplain -[ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -MF CMakeFiles/ngs.dir/NGS_ErrBlock.c.o.d -o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ErrBlock.c -[ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -MF CMakeFiles/fasterq-dump.dir/cleanup_task.c.o.d -o CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cleanup_task.c -[ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -MF CMakeFiles/sam-dump.dir/md_flag.c.o.d -o CMakeFiles/sam-dump.dir/md_flag.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/md_flag.c -[ 33%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlob.c -[ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o -MF CMakeFiles/fasterq-dump.dir/index.c.o.d -o CMakeFiles/fasterq-dump.dir/index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/index.c -[ 33%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/diagnose && /usr/bin/cmake -E cmake_link_script CMakeFiles/diagnose.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-writer.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Package.html... -[ 33%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o -MF CMakeFiles/sra-pileup.dir/walk_debug.c.o.d -o CMakeFiles/sra-pileup.dir/walk_debug.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/walk_debug.c +[ 8%] Linking C executable ../../../bin/kar+meta +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+meta.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:37: warning: no main description * @return package version as a 1..3 part string ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Package.java:33: warning: use of default constructor, which does not provide a comment public class Package ^ -make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-dump.dir/link.d "CMakeFiles/abi-dump.dir/factory.c.o" "CMakeFiles/abi-dump.dir/fasta_dump.c.o" "CMakeFiles/abi-dump.dir/core.c.o" "CMakeFiles/abi-dump.dir/abi.c.o" -o ../../../bin/abi-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Pileup.html... -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-dump abi-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3.0.9 abi-dump.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3 abi-dump -[ 33%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build.make tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/build +[ 8%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ReadGroupItf.cpp +/usr/bin/ar qc ../../ilib/libgeneral-writer.a "CMakeFiles/general-writer.dir/general-writer.cpp.o" "CMakeFiles/general-writer.dir/utf8-like-int-codec.c.o" +/usr/bin/ranlib ../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c -[ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -[ 34%] Linking C executable ../../../bin/vdb-encrypt -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_reader.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_reader.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-encrypt.dir/link.txt --verbose=1 +Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Pileup.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Pileup.java:58: warning: no main description * @return base at current Reference position ^ -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-formats.c -[ 34%] Building C object tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o -[ 34%] Built target abi-dump -[ 34%] Linking C static library ../../../../ilib/libtui.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/util\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/kdbmeta/CMakeFiles/kdbmeta.dir/kdbmeta.c.o -MF CMakeFiles/kdbmeta.dir/kdbmeta.c.o.d -o CMakeFiles/kdbmeta.dir/kdbmeta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/kdbmeta/kdbmeta.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui.dir/cmake_clean_target.cmake -[ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -MF CMakeFiles/fasterq-dump.dir/locked_file_list.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_file_list.c +/usr/bin/ar qc ../../ilib/libdiagnose.a CMakeFiles/diagnose.dir/diagnose.c.o CMakeFiles/diagnose.dir/endpoint.c.o +/usr/bin/ranlib ../../ilib/libdiagnose.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 8%] Built target general-writer +make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/depend +[ 8%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupItf.cpp +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEvent.html... +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar.dir/link.d "CMakeFiles/kar.dir/kar-path.c.o" "CMakeFiles/kar.dir/kar-args.c.o" CMakeFiles/kar.dir/kar.c.o -o ../../../bin/kar /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:118: warning: no comment static int alignment_minus_strand = 0x20; ^ -[ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o +[ 8%] Built target diagnose /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:116: warning: no comment static int alignment_start = 0x80; ^ -[ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o +[ 8%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:117: warning: no comment -make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/depend static int alignment_stop = 0x40; ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o -MF CMakeFiles/fasterq-dump.dir/locked_value.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_value.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_value.c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:98: warning: no comment static int deletion = 2; -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o -MF CMakeFiles/fasterq-dump.dir/file_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/file_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_printer.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info/CMakeFiles/align-info.dir/DependInfo.cmake "--color=" ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:104: warning: no comment static int insertion = 0x08; ^ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PileupEventItf.cpp /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:112: warning: no comment static int insertion_before_deletion = insertion | deletion; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:107: warning: no comment static int insertion_before_match = insertion | match; ^ -[ 34%] Linking C executable ../../../bin/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:108: warning: no comment static int insertion_before_mismatch = insertion | mismatch; ^ @@ -3598,7 +2891,6 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:179: warning: no comment static int intron_plus = 1; ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-decrypt.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:181: warning: no comment static int intron_unknown = 3; ^ @@ -3608,139 +2900,49 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:191: warning: no comment static int read_gap = 5; ^ +make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/depend /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:186: warning: no comment static int read_overlap = 4; ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/PileupEvent.java:113: warning: no comment static int replacement = insertion_before_deletion; ^ -make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra/CMakeFiles/test-sra.dir/DependInfo.cmake "--color=" -[ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlobIterator.c -make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/align-info/CMakeFiles/align-info.dir/build.make tools/external/align-info/CMakeFiles/align-info.dir/build -[ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/test-sra/CMakeFiles/test-sra.dir/build.make tools/external/test-sra/CMakeFiles/test-sra.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o -MF CMakeFiles/sra-pileup.dir/pileup_counters.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_counters.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_counters.c -make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info/CMakeFiles/sra-info.dir/DependInfo.cmake "--color=" -[ 34%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/test-sra.c.o -[ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/test-sra.c.o -MF CMakeFiles/test-sra.dir/test-sra.c.o.d -o CMakeFiles/test-sra.dir/test-sra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/test-sra.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar kar.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlob.c -[ 34%] Building C object tools/external/align-info/CMakeFiles/align-info.dir/align-info.c.o -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/align-info/CMakeFiles/align-info.dir/align-info.c.o -MF CMakeFiles/align-info.dir/align-info.c.o.d -o CMakeFiles/align-info.dir/align-info.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/align-info/align-info.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-encrypt vdb-encrypt.3.0.9 -make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/depend -/usr/bin/ar qc ../../../../ilib/libtui.a CMakeFiles/tui.dir/dir_dlg.c.o CMakeFiles/tui.dir/eventring.c.o CMakeFiles/tui.dir/file_dlg.c.o CMakeFiles/tui.dir/line_policy.c.o CMakeFiles/tui.dir/screen.c.o CMakeFiles/tui.dir/string_cache.c.o CMakeFiles/tui.dir/tui.c.o CMakeFiles/tui.dir/tui_dlg.c.o CMakeFiles/tui.dir/tui_dlg_helper.c.o CMakeFiles/tui.dir/tui_menu.c.o CMakeFiles/tui.dir/tui_palette.c.o CMakeFiles/tui.dir/tui_std_dlg.c.o CMakeFiles/tui.dir/tui_widget.c.o CMakeFiles/tui.dir/tui_widget_button.c.o CMakeFiles/tui.dir/tui_widget_checkbox.c.o CMakeFiles/tui.dir/tui_widget_grid.c.o CMakeFiles/tui.dir/tui_widget_inputline.c.o CMakeFiles/tui.dir/tui_widget_label.c.o CMakeFiles/tui.dir/tui_widget_progress.c.o CMakeFiles/tui.dir/tui_widget_radiobox.c.o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o CMakeFiles/tui.dir/tui_widget_string_list.c.o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o CMakeFiles/tui.dir/linux/systui.c.o -/usr/bin/ranlib ../../../../ilib/libtui.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-encrypt.3.0.9 vdb-encrypt.3 +make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader/CMakeFiles/bam-load.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3.0.9 kar.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3 kar make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupEventIterator.html... -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-encrypt.3 vdb-encrypt -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-info/CMakeFiles/sra-info.dir/build.make tools/external/sra-info/CMakeFiles/sra-info.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-decrypt.dir/link.d "CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o" "CMakeFiles/vdb-decrypt.dir/shared.c.o" -o ../../../bin/vdb-decrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-decrypt.3.0.9 -[ 34%] Building C object tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-decrypt vdb-decrypt.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cache-mgr\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -MF CMakeFiles/cache-mgr.dir/cache-mgr.c.o.d -o CMakeFiles/cache-mgr.dir/cache-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-decrypt.3.0.9 vdb-decrypt.3 -make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build -make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-decrypt.3 vdb-decrypt -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 8%] Building C object tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o +make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/main.cpp.o -MF CMakeFiles/sra-info.dir/main.cpp.o.d -o CMakeFiles/sra-info.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/main.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -MF CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o.d -o CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dump-blob-boundaries.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/PileupIterator.html... -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -[ 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CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-redir.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o -MF CMakeFiles/sra-pileup.dir/pileup_index.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_index.c -make -f tools/loaders/bam-loader/CMakeFiles/samview.dir/build.make tools/loaders/bam-loader/CMakeFiles/samview.dir/build -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o +[ 9%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o +[ 9%] Built target kar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_menu.c.o -MF CMakeFiles/tui.dir/tui_menu.c.o.d -o CMakeFiles/tui.dir/tui_menu.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_menu.c +make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/depend +[ 9%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-fastq.c -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o -MF CMakeFiles/samview.dir/sam.c.o.d -o CMakeFiles/samview.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c +[ 10%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Read.html... -make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar.dir/DependInfo.cmake "--color=" -[ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/bam.c.o -MF CMakeFiles/samview.dir/bam.c.o.d -o CMakeFiles/samview.dir/bam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-inspect.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/kar/CMakeFiles/kar.dir/build.make tools/loaders/kar/CMakeFiles/kar.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_report': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:702:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] - 702 | octx->data = &data; - | ~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:699:17: note: 'data' declared here - 699 | report_data data; - | ^~~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -MF CMakeFiles/sra-sort.dir/caps.c.o.d -o CMakeFiles/sra-sort.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+meta.dir/link.d CMakeFiles/kar+meta.dir/kar+util.c.o CMakeFiles/kar+meta.dir/kar+meta.c.o -o ../../../bin/kar+meta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:35: warning: no comment public interface Read ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:696:41: note: 'octx' declared here - 696 | static rc_t perform_report( visit_ctx * octx ) - | ~~~~~~~~~~~~^~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_unlock': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:905:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] - 905 | octx->data = &data; - | ~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:902:17: note: 'data' declared here - 902 | unlock_data data; - | ^~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:899:41: note: 'octx' declared here - 899 | static rc_t perform_unlock( visit_ctx * octx ) - | ~~~~~~~~~~~~^~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_clear': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:990:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] - 990 | octx->data = &data; - | ~~~~~~~~~~~^~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:987:16: note: 'data' declared here - 987 | clear_data data; - | ^~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:984:40: note: 'octx' declared here - 984 | static rc_t perform_clear( visit_ctx * octx ) - | ~~~~~~~~~~~~^~~~ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:79: warning: no comment static int aligned = fullyAligned | partiallyAligned; ^ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+meta.3.0.9 /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:81: warning: no comment static int all = aligned | unaligned; ^ @@ -3750,1938 +2952,1454 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Read.java:80: warning: no comment static int unaligned = 4; ^ -[ 34%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-path.c.o -MF CMakeFiles/kar.dir/kar-path.c.o.d -o CMakeFiles/kar.dir/kar-path.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-path.c -[ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o -[ 34%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -[ 34%] Building CXX object tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o -MF CMakeFiles/sra-info.dir/formatter.cpp.o.d -o CMakeFiles/sra-info.dir/formatter.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/formatter.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o -MF CMakeFiles/sra-pileup.dir/pileup_indels.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_indels.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_indels.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-info/CMakeFiles/sra-info.dir/sra-info.cpp.o -MF CMakeFiles/sra-info.dir/sra-info.cpp.o.d -o CMakeFiles/sra-info.dir/sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/sra-info.cpp -[ 34%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o -MF CMakeFiles/test-sra.dir/unix/PrintOS.c.o.d -o CMakeFiles/test-sra.dir/unix/PrintOS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/unix/PrintOS.c -[ 34%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar-args.c.o -MF CMakeFiles/kar.dir/kar-args.c.o.d -o CMakeFiles/kar.dir/kar-args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar-args.c -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -MF CMakeFiles/vdb-dump.dir/vdb_info.c.o.d -o CMakeFiles/vdb-dump.dir/vdb_info.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb_info.c -[ 34%] Linking CXX static library ../../../../ilib/libngs-bind-java.a -[ 34%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -P CMakeFiles/ngs-bind-java.dir/cmake_clean_target.cmake +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+meta kar+meta.3.0.9 +make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build +[ 10%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o -MF CMakeFiles/ngs.dir/CSRA1_Reference.c.o.d -o CMakeFiles/ngs.dir/CSRA1_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_Reference.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3.0.9 kar+meta.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3 kar+meta +[ 10%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -MF CMakeFiles/sra-sort-cg.dir/caps.c.o.d -o CMakeFiles/sra-sort-cg.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadCollection.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:88: warning: no main description * @param spec the name of a contained read group ^ -[ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadCollection.java:121: warning: no main description * @param spec the name of a contained Reference ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/sam.c.o -MF CMakeFiles/samview.dir/sam.c.o.d -o CMakeFiles/samview.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c -[ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -MF CMakeFiles/fasterq-dump.dir/merge_sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/merge_sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/merge_sorter.c -[ 34%] Linking C executable ../../../bin/srapath -Note: Some input files use or override a deprecated API. -Note: Recompile with -Xlint:deprecation for details. -1 warning -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cmake -E cmake_link_script CMakeFiles/srapath.dir/link.txt --verbose=1 -[ 34%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-java.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o -MF CMakeFiles/fasterq-dump.dir/sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/sorter.c -[ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o -MF CMakeFiles/bam-load.dir/sam.c.o.d -o CMakeFiles/bam-load.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c -[ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o -MF CMakeFiles/bam-load.dir/bam.c.o.d -o CMakeFiles/bam-load.dir/bam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_JsonParsing.dir/link.d "CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o" -o ../../../test-bin/Test_Drivertool_JsonParsing +[ 10%] Built target kar+meta +make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/depend +[ 10%] Building CXX object libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -MF CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o.d -o CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/VdbAlignment.cpp +[ 10%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEventIterator.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 34%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlobIterator.c -[ 34%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/alignment-writer.c.o -MF CMakeFiles/bam-load.dir/alignment-writer.c.o.d -o CMakeFiles/bam-load.dir/alignment-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/alignment-writer.c -[ 34%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -MF CMakeFiles/sra-pileup.dir/pileup_varcount.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_varcount.c +make -f tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build.make tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/build +[ 11%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupEventIteratorItf.cpp +[ 11%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -MF CMakeFiles/sra-sort.dir/mem.c.o.d -o CMakeFiles/sra-sort.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroup.html... +[ 11%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/spot-assembler.c.o -MF CMakeFiles/fastqloader.dir/spot-assembler.c.o.d -o CMakeFiles/fastqloader.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadGroupIterator.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReadIterator.html... /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/ReadIterator.java:34: warning: no comment public interface ReadIterator ^ -[ 34%] Built target Test_Drivertool_JsonParsing Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Reference.html... -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srapath.dir/link.d CMakeFiles/srapath.dir/helper.c.o CMakeFiles/srapath.dir/line_iter.c.o "CMakeFiles/srapath.dir/repository-mgr.c.o" CMakeFiles/srapath.dir/services.c.o CMakeFiles/srapath.dir/cgi_request.c.o CMakeFiles/srapath.dir/srapath.c.o -o ../../../bin/srapath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srapath.3.0.9 -[ 35%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -MF CMakeFiles/ngs.dir/VByteBlob.c.o.d -o CMakeFiles/ngs.dir/VByteBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/VByteBlob.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srapath srapath.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3.0.9 srapath.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3 srapath -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 srapath-driver -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_compiled_ngs-java -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/ar qc ../../../../ilib/libngs-bind-java.a "CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" -/usr/bin/ranlib ../../../../ilib/libngs-bind-java.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 35%] Built target srapath -[ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o -[ 35%] Built target ngs-bind-java -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o -MF CMakeFiles/sam-dump.dir/cg_tools.c.o.d -o CMakeFiles/sam-dump.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c +[ 11%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o -MF CMakeFiles/sra-sort-cg.dir/mem.c.o.d -o CMakeFiles/sra-sort-cg.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c +[ 12%] Linking C executable ../../../bin/dump-blob-boundaries +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/dump-blob-boundaries.dir/link.txt --verbose=1 +[ 13%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-E cmake_link_script CMakeFiles/kar+.dir/link.txt --verbose=1 Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/ReferenceSequence.html... -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o -MF CMakeFiles/sra-pileup.dir/pileup_stat.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_stat.c -[ 35%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o -MF CMakeFiles/samview.dir/samview.c.o.d -o CMakeFiles/samview.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/samview.c -[ 35%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -[ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -MF CMakeFiles/sra-pileup.dir/pileup_v2.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_v2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_v2.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o -MF CMakeFiles/sra-pileup.dir/sra-pileup.c.o.d -o CMakeFiles/sra-pileup.dir/sra-pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c -[ 36%] Building C object tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar.dir/kar.c.o -MF CMakeFiles/kar.dir/kar.c.o.d -o CMakeFiles/kar.dir/kar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar.c -[ 36%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o -MF CMakeFiles/bam-load.dir/reference-writer.c.o.d -o CMakeFiles/bam-load.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/reference-writer.c -[ 36%] Linking C executable ../../../bin/align-info -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-info.dir/link.txt --verbose=1 -[ 36%] Creating Java archive ngs-java.jar -[ 36%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o +[ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -MF CMakeFiles/sra-sort-cg.dir/membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/dump-blob-boundaries.dir/link.d "CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o" -o ../../../bin/dump-blob-boundaries /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/Statistics.html... -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar @java_class_filelist -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o -MF CMakeFiles/bam-load.dir/sequence-writer.c.o.d -o CMakeFiles/bam-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sequence-writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-blob-boundaries.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir/java_compiled_ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:41: warning: no comment static int int64 = 2; ^ -[ 36%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:43: warning: no comment static int real = 4; ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o -MF CMakeFiles/sam-dump.dir/sam-dump.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c -[ 37%] Linking C executable ../../../bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:40: warning: no comment static int string = 1; ^ /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/ngs/Statistics.java:42: warning: no comment static int uint64 = 3; ^ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdbmeta.dir/link.txt --verbose=1 -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c: In function 'KMain': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c:1416:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 1416 | ReportBuildDate( __DATE__ ); - | ^~~~~~~~ -[ 37%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -MF CMakeFiles/fasterq-dump.dir/cmn_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cmn_iter.c -[ 37%] Linking C static library ../../../ilib/libngs.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -P CMakeFiles/ngs.dir/cmake_clean_target.cmake -[ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -MF CMakeFiles/sam-dump.dir/sam-dump3.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c -Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-summary.html... -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-info.dir/link.d "CMakeFiles/align-info.dir/align-info.c.o" -o ../../../bin/align-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-info.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-info align-info.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3.0.9 align-info.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3 align-info +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv dump-blob-boundaries dump-blob-boundaries.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3.0.9 dump-blob-boundaries.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3 dump-blob-boundaries make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs.dir/link.txt --verbose=1 +Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-summary.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/gov/nih/nlm/ncbi/ngs/package-tree.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-summary.html... -[ 38%] Built target align-info -[ 38%] Linking C executable ../../../bin/cache-mgr -[ 38%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cmake -E cmake_link_script CMakeFiles/cache-mgr.dir/link.txt --verbose=1 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -MF CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/raw_read_iter.c -[ 38%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -MF CMakeFiles/sam-dump.dir/dyn_string.c.o.d -o CMakeFiles/sam-dump.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/dyn_string.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/kar/CMakeFiles/kar+.dir/build.make tools/loaders/kar/CMakeFiles/kar+.dir/build +[ 13%] Built target dump-blob-boundaries +[ 13%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o +[ 13%] Generating CMakeFiles/ngs-java.dir/java_class_filelist +make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/depend Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/ngs/package-tree.html... +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/config.cpp.o -MF CMakeFiles/sratools.dir/config.cpp.o.d -o CMakeFiles/sratools.dir/config.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/config.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c: In function 'KMain': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c:557:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 557 | ReportBuildDate( __DATE__ ); - | ^~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c: In function 'SAM_Dump_Main': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c:4387:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 4387 | ReportBuildDate( __DATE__ ); - | ^~~~~~~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/constant-values.html... -[ 38%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -[ 38%] Linking CXX executable ../../../bin/check-corrupt -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -MF CMakeFiles/fasterq-dump.dir/special_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/special_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/special_iter.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-corrupt.dir/link.txt --verbose=1 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdbmeta.dir/link.d CMakeFiles/kdbmeta.dir/kdbmeta.c.o -o ../../../bin/kdbmeta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdbmeta.3.0.9 -[ 38%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar-path.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdbmeta kdbmeta.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_Read.c.o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Statistics.c.o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o CMakeFiles/ngs.dir/NGS_Pileup.c.o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o CMakeFiles/ngs.dir/NGS_Alignment.c.o CMakeFiles/ngs.dir/NGS_Reference.c.o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Read.c.o CMakeFiles/ngs.dir/NGS_Fragment.c.o CMakeFiles/ngs.dir/NGS_Cursor.c.o CMakeFiles/ngs.dir/NGS_Refcount.c.o CMakeFiles/ngs.dir/NGS_String.c.o CMakeFiles/ngs.dir/NGS_Id.c.o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o CMakeFiles/ngs.dir/VByteBlob.c.o -/usr/bin/ranlib ../../../ilib/libngs.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/serialized-form.html... -[ 38%] Built target kdbmeta -[ 39%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_ua_iter.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+.dir/link.d "CMakeFiles/kar+.dir/kar-path.c.o" CMakeFiles/kar+.dir/kar+args.c.o CMakeFiles/kar+.dir/kar+print.c.o CMakeFiles/kar+.dir/kar+util.c.o CMakeFiles/kar+.dir/kar+.c.o -o ../../../bin/kar+ /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+ kar+.3.0.9 +[ 13%] Creating Java archive ngs-java.jar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar @java_class_filelist +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3.0.9 kar+.3 +[ 13%] Building C object libs/loader/CMakeFiles/loader.dir/mmarray.c.o Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-tree.html... -[ 39%] Built target ngs +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/mmarray.c.o -MF CMakeFiles/loader.dir/mmarray.c.o.d -o CMakeFiles/loader.dir/mmarray.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/mmarray.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3 kar+ Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index.html... -[ 39%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o -MF CMakeFiles/bam-load.dir/loader-imp.c.o.d -o CMakeFiles/bam-load.dir/loader-imp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c -[ 40%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o -MF CMakeFiles/bam-load.dir/mem-bank.cpp.o.d -o CMakeFiles/bam-load.dir/mem-bank.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/mem-bank.cpp -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cache-mgr.dir/link.d "CMakeFiles/cache-mgr.dir/cache-mgr.c.o" -o ../../../bin/cache-mgr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cache-mgr.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cache-mgr cache-mgr.3.0.9 -[ 40%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o -MF CMakeFiles/bam-load.dir/low-match-count.cpp.o.d -o CMakeFiles/bam-load.dir/low-match-count.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/low-match-count.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3.0.9 cache-mgr.3 -make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/depend -[ 40%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3 cache-mgr -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+args.c.o -MF CMakeFiles/kar+.dir/kar+args.c.o.d -o CMakeFiles/kar+.dir/kar+args.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+args.c -make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar/CMakeFiles/kar+meta.dir/DependInfo.cmake "--color=" -make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 13%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -MF CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o.d -o CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-gw-dumper.cpp +[ 13%] Built target kar+ +[ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o +make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/depend Building index for all classes... +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -MF CMakeFiles/sra-sort.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/DependInfo.cmake "--color=" Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allclasses-index.html... -[ 40%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_csra_iter.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 40%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o -MF CMakeFiles/fasterq-dump.dir/align_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/align_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/align_iter.c +[ 13%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_palette.c.o -MF CMakeFiles/tui.dir/tui_palette.c.o.d -o CMakeFiles/tui.dir/tui_palette.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_palette.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/allpackages-index.html... -[ 40%] Built target cache-mgr -[ 40%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+print.c.o -MF CMakeFiles/kar+.dir/kar+print.c.o.d -o CMakeFiles/kar+.dir/kar+print.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+print.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/kar/CMakeFiles/kar+meta.dir/build.make tools/loaders/kar/CMakeFiles/kar+meta.dir/build -make -f tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build.make tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/build -make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/index-all.html... -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/DependInfo.cmake "--color=" -[ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/caps.c.o -MF CMakeFiles/sra-sort.dir/caps.c.o.d -o CMakeFiles/sra-sort.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-corrupt.dir/link.d "CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o" -o ../../../bin/check-corrupt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-corrupt.3.0.9 -[ 41%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+util.c.o -MF CMakeFiles/kar+meta.dir/kar+util.c.o.d -o CMakeFiles/kar+meta.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-corrupt check-corrupt.3.0.9 -[ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -[ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mem.c.o -MF CMakeFiles/sra-sort.dir/mem.c.o.d -o CMakeFiles/sra-sort.dir/mem.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mem.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -MF CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o.d -o CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dump-blob-boundaries.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build.make tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3.0.9 check-corrupt.3 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3 check-corrupt -[ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/membank.c.o -MF CMakeFiles/sra-sort.dir/membank.c.o.d -o CMakeFiles/sra-sort.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c -[ 41%] Building C object tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+meta.dir/kar+meta.c.o -MF CMakeFiles/kar+meta.dir/kar+meta.c.o.d -o CMakeFiles/kar+meta.dir/kar+meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+meta.c -[ 41%] Built target check-corrupt -[ 41%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/caps.c.o -MF CMakeFiles/sra-sort-cg.dir/caps.c.o.d -o CMakeFiles/sra-sort-cg.dir/caps.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/caps.c -[ 42%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o -make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/kar\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+util.c.o -MF CMakeFiles/kar+.dir/kar+util.c.o.d -o CMakeFiles/kar+.dir/kar+util.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+util.c +make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/DependInfo.cmake "--color=" +[ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c +[ 13%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o -MF CMakeFiles/makeinputs.dir/makeinputs.cpp.o.d -o CMakeFiles/makeinputs.dir/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/makeinputs.cpp +[ 13%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/AlignmentItf.cpp +[ 13%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/PileupEvent.cpp +[ 13%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventIteratorItf.cpp +[ 13%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-writer.c.o -MF CMakeFiles/fastqloader.dir/common-writer.c.o.d -o CMakeFiles/fastqloader.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c +[ 13%] Building C object libs/loader/CMakeFiles/loader.dir/reference-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/reference-writer.c.o -MF CMakeFiles/loader.dir/reference-writer.c.o.d -o CMakeFiles/loader.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/reference-writer.c Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/search.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/overview-summary.html... Generating /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc/help-doc.html... -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 42%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/sff-load.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -MF CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/simple_fasta_iter.c -[ 42%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -[ 42%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/db_join.c.o -[ 42%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-membank.c.o -MF 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT libs/ngs-vdb/CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -MF CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o.d -o CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/NGS-VDB.cpp +[ 13%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_std_dlg.c.o 52 warnings -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/build -[ 42%] Built target ngs-java -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 43%] Linking C executable ../../../bin/vdb-validate -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-validate.dir/link.txt --verbose=1 -[ 43%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mem.c.o -[ 43%] Building C object tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/kar/CMakeFiles/kar+.dir/kar+.c.o -MF CMakeFiles/kar+.dir/kar+.c.o.d -o CMakeFiles/kar+.dir/kar+.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/kar/kar+.c -[ 43%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/paged-mmapbank.c.o -[ 44%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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CMakeFiles/sff-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c -[ 44%] Built target ngs-doc_javadoc -[ 45%] Linking C executable ../../../bin/dump-blob-boundaries -[ 45%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o -MF CMakeFiles/sra-sort.dir/except.c.o.d -o CMakeFiles/sra-sort.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c -[ 45%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tbl_join.c.o -[ 45%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tbl_join.c.o -MF CMakeFiles/fasterq-dump.dir/tbl_join.c.o.d -o CMakeFiles/fasterq-dump.dir/tbl_join.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tbl_join.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c -[ 45%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o -MF CMakeFiles/sff-load.dir/common-xml.c.o.d -o CMakeFiles/sff-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c -make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/fastq-load.dir/DependInfo.cmake "--color=" -[ 45%] Linking C executable ../../../bin/sra-pileup -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-pileup.dir/link.txt --verbose=1 -[ 45%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char 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/build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/srf-load.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-validate.dir/link.d "CMakeFiles/vdb-validate.dir/main.c.o" "CMakeFiles/vdb-validate.dir/vdb-validate.c.o" "CMakeFiles/vdb-validate.dir/check-redact.c.o" -o ../../../bin/vdb-validate /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -[ 46%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -[ 46%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-validate.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/membank.c.o -MF CMakeFiles/sra-sort-cg.dir/membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/membank.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -MF CMakeFiles/fastq-load.dir/pstring.c.o.d -o CMakeFiles/fastq-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-validate vdb-validate.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3.0.9 vdb-validate.3 -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3DefaultRowEst': -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3 vdb-validate -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 13%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupItf.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/depend -[ 46%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o +[ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o +[ 13%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-mmapbank.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -MF CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/CSRA1_ReadCollection.c +[ 13%] Built target ngs-doc_javadoc +make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/abi-load.dir/DependInfo.cmake "--color=" -[ 46%] Built target vdb-validate -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o -MF CMakeFiles/srf-load.dir/pstring.c.o.d -o CMakeFiles/srf-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] -102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); - | ^~ -[ 47%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -MF CMakeFiles/latf-load.dir/sequence-writer.c.o.d -o CMakeFiles/latf-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/build -[ 47%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o +make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o -MF CMakeFiles/srf-load.dir/common-xml.c.o.d -o CMakeFiles/srf-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c -[ 47%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -MF CMakeFiles/latf-load.dir/common-reader.c.o.d -o CMakeFiles/latf-load.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/dump-blob-boundaries.dir/link.d "CMakeFiles/dump-blob-boundaries.dir/dump-blob-boundaries.c.o" -o ../../../bin/dump-blob-boundaries /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-pileup.dir/link.d "CMakeFiles/sra-pileup.dir/dyn_string.c.o" "CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o" "CMakeFiles/sra-pileup.dir/out_redir.c.o" "CMakeFiles/sra-pileup.dir/perf_log.c.o" "CMakeFiles/sra-pileup.dir/reref.c.o" "CMakeFiles/sra-pileup.dir/cg_tools.c.o" "CMakeFiles/sra-pileup.dir/report_deletes.c.o" "CMakeFiles/sra-pileup.dir/ref_regions.c.o" "CMakeFiles/sra-pileup.dir/4na_ascii.c.o" "CMakeFiles/sra-pileup.dir/ref_walker_0.c.o" "CMakeFiles/sra-pileup.dir/ref_walker.c.o" "CMakeFiles/sra-pileup.dir/walk_debug.c.o" "CMakeFiles/sra-pileup.dir/pileup_counters.c.o" "CMakeFiles/sra-pileup.dir/pileup_index.c.o" "CMakeFiles/sra-pileup.dir/pileup_indels.c.o" "CMakeFiles/sra-pileup.dir/pileup_varcount.c.o" "CMakeFiles/sra-pileup.dir/pileup_stat.c.o" "CMakeFiles/sra-pileup.dir/pileup_v2.c.o" "CMakeFiles/sra-pileup.dir/sra-pileup.c.o" -o ../../../bin/sra-pileup /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:11540: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' -102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); - | ^~~~~~ -[ 48%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f dump-blob-boundaries.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-pileup.3.0.9 -[ 48%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o -MF CMakeFiles/sff-load.dir/experiment-xml.c.o.d -o CMakeFiles/sff-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -MF CMakeFiles/abi-load.dir/pstring.c.o.d -o CMakeFiles/abi-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv dump-blob-boundaries dump-blob-boundaries.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-pileup sra-pileup.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3.0.9 dump-blob-boundaries.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3.0.9 sra-pileup.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3 sra-pileup -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sra-pileup-driver -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s dump-blob-boundaries.3 dump-blob-boundaries -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 13%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -MF CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o.d -o CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 48%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -[ 48%] Linking C executable ../../../bin/kar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -MF CMakeFiles/sff-load.dir/run-xml.c.o.d -o CMakeFiles/sff-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar.dir/link.txt --verbose=1 -make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/depend +[ 13%] Built target ngs-java +[ 13%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o +make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/except.c.o -MF CMakeFiles/sra-sort.dir/except.c.o.d -o CMakeFiles/sra-sort.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/illumina-load.dir/DependInfo.cmake "--color=" -[ 48%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o -MF CMakeFiles/abi-load.dir/common-xml.c.o.d -o CMakeFiles/abi-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] -102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); - | ^~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] - 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here - 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, - | ^~~~~~~~~~~~~~~~~ -[ 48%] Built target dump-blob-boundaries -[ 48%] Built target sra-pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/DependInfo.cmake "--color=" +[ 14%] Building C object libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/loader/CMakeFiles/loader.dir/sequence-writer.c.o -MF CMakeFiles/loader.dir/sequence-writer.c.o.d -o CMakeFiles/loader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/loader/sequence-writer.c +[ 14%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build -[ 48%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o +make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget.c.o -MF CMakeFiles/tui.dir/tui_widget.c.o.d -o CMakeFiles/tui.dir/tui_widget.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o -MF CMakeFiles/sra-sort.dir/col-pair.c.o.d -o CMakeFiles/sra-sort.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' -102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); - | ^~~~~~ -[ 48%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-membank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-membank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-membank.c -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o -MF CMakeFiles/illumina-load.dir/pstring.c.o.d -o CMakeFiles/illumina-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o -MF CMakeFiles/fastq-load.dir/common-xml.c.o.d -o CMakeFiles/fastq-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c -[ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -MF CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o.d -o CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/paged-mmapbank.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar.dir/link.d "CMakeFiles/kar.dir/kar-path.c.o" "CMakeFiles/kar.dir/kar-args.c.o" CMakeFiles/kar.dir/kar.c.o -o ../../../bin/kar /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar.3.0.9 -[ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o +[ 14%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -MF CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o.d -o CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp +[ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/except.c.o -MF CMakeFiles/sra-sort-cg.dir/except.c.o.d -o CMakeFiles/sra-sort-cg.dir/except.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/except.c -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o -MF CMakeFiles/illumina-load.dir/common-xml.c.o.d -o CMakeFiles/illumina-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar kar.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3.0.9 kar.3 -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o -MF CMakeFiles/illumina-load.dir/experiment-xml.c.o.d -o CMakeFiles/illumina-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar.3 kar -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] - 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here - 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, - | ^~~~~~~~~~~~~~~~~ -[ 49%] Linking C executable ../../../bin/kar+meta -[ 49%] Built target kar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+meta.dir/link.txt --verbose=1 -make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/depend -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/helicos-load.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o -MF CMakeFiles/illumina-load.dir/loader-file.c.o.d -o CMakeFiles/illumina-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -[ 49%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -MF CMakeFiles/illumina-load.dir/loader-fmt.c.o.d -o CMakeFiles/illumina-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o -MF CMakeFiles/fasterq-dump.dir/temp_registry.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_registry.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_registry.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o -make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o -MF CMakeFiles/helicos-load.dir/pstring.c.o.d -o CMakeFiles/helicos-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c -[ 49%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kar+meta.dir/link.d CMakeFiles/kar+meta.dir/kar+util.c.o CMakeFiles/kar+meta.dir/kar+meta.c.o -o ../../../bin/kar+meta /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kar+meta.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o -MF CMakeFiles/sff-load.dir/loader-file.c.o.d -o CMakeFiles/sff-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+meta kar+meta.3.0.9 -[ 49%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o +[ 14%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o +[ 14%] Building C object tools/loaders/bam-loader/CMakeFiles/samview.dir/samview.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/AlignmentIterator.cpp +cd 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CMakeFiles/samview.dir/samview.c.o.d -o CMakeFiles/samview.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/samview.c +[ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c +[ 14%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_PileupEventItf.cpp +[ 14%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -MF CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o.d -o CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/idx-mapping.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3.0.9 kar+meta.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+meta.3 kar+meta -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -[ 49%] Built target kar+meta -[ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -MF CMakeFiles/sra-sort-cg.dir/map-file.c.o.d -o CMakeFiles/sra-sort-cg.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c -[ 50%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -MF CMakeFiles/fasterq-dump.dir/copy_machine.c.o.d -o CMakeFiles/fasterq-dump.dir/copy_machine.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/copy_machine.c -[ 50%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o -cd 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tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o -MF CMakeFiles/helicos-load.dir/common-xml.c.o.d -o CMakeFiles/helicos-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:3453:44: warning: "/*" within comment [-Wcomment] - 3453 | int const logLevel = klogWarn; /*G.assembleWithSecondary ? klogWarn : klogErr; -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:4163:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 4163 | rc = KLoaderMeta_Write(node, progName, __DATE__, "BAM", KAppVersion()); - | ^~~~~~~~ -[ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 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tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -[ 50%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -MF CMakeFiles/fastq-load.dir/experiment-xml.c.o.d -o CMakeFiles/fastq-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c -[ 50%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c -[ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o -MF CMakeFiles/sra-sort.dir/row-set.c.o.d -o CMakeFiles/sra-sort.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c -[ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o -MF CMakeFiles/latf-load.dir/fastq-reader.c.o.d -o CMakeFiles/latf-load.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o -MF CMakeFiles/fastq-load.dir/run-xml.c.o.d -o CMakeFiles/fastq-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c -[ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o -MF CMakeFiles/srf-load.dir/experiment-xml.c.o.d -o CMakeFiles/srf-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c -[ 51%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-lex.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o -MF CMakeFiles/fastq-load.dir/loader-file.c.o.d -o CMakeFiles/fastq-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c -[ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -MF CMakeFiles/abi-load.dir/experiment-xml.c.o.d -o CMakeFiles/abi-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c -[ 51%] Linking C executable ../../../bin/kar+ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/kar && /usr/bin/cmake -E cmake_link_script CMakeFiles/kar+.dir/link.txt --verbose=1 -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o -MF CMakeFiles/sff-load.dir/sra-writer.c.o.d -o CMakeFiles/sff-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c -[ 51%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o -MF CMakeFiles/sff-load.dir/loader.c.o.d -o CMakeFiles/sff-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c -make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/DependInfo.cmake "--color=" -[ 51%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 52%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o -[ 52%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o -MF CMakeFiles/fasterq-dump.dir/concatenator.c.o.d -o CMakeFiles/fasterq-dump.dir/concatenator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/concatenator.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration 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[-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kar+ kar+.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3.0.9 kar+.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kar+.3 kar+ -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 53%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -[ 53%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 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-/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/loader-imp.c:180:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 180 | rc = KLoaderMeta_Write(node, progName, __DATE__, "FASTQ", KAppVersion()); - | ^~~~~~~~ -[ 56%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o -MF CMakeFiles/sra-sort.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -make -f tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/build.make tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra.dir/link.d "CMakeFiles/test-sra.dir/test-sra.c.o" "CMakeFiles/test-sra.dir/unix/PrintOS.c.o" -o ../../../bin/test-sra ../../../ilib/libascp.a ../../../ilib/libdiagnose.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-sra.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-sra test-sra.3.0.9 +[ 14%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_PileupIteratorItf.cpp +[ 14%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o +cd 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/map-file.c.o -MF CMakeFiles/sra-sort.dir/map-file.c.o.d -o CMakeFiles/sra-sort.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c +[ 14%] Built target loader +make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 56%] Building C object 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/map-file.c.o -MF CMakeFiles/sra-sort-cg.dir/map-file.c.o.d -o CMakeFiles/sra-sort-cg.dir/map-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/map-file.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 15%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/command-line.cpp.o +[ 15%] Linking CXX executable ../../../../test-bin/test-gw-dumper +cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-gw-dumper.dir/link.txt --verbose=1 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview.dir/link.d CMakeFiles/samview.dir/bam.c.o CMakeFiles/samview.dir/sam.c.o CMakeFiles/samview.dir/samview.c.o -o ../../../bin/samview /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lz -[ 57%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o -[ 57%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5arrayfile.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump.dir/link.txt --verbose=1 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview samview.3.0.9 +/usr/bin/ar qc ../../ilib/libngs-vdb.a "CMakeFiles/ngs-vdb.dir/VdbReadCollection.cpp.o" "CMakeFiles/ngs-vdb.dir/FragmentBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/FragmentBlob.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbReference.cpp.o" "CMakeFiles/ngs-vdb.dir/ReferenceBlob.cpp.o" "CMakeFiles/ngs-vdb.dir/ReferenceBlobIterator.cpp.o" "CMakeFiles/ngs-vdb.dir/VdbAlignment.cpp.o" "CMakeFiles/ngs-vdb.dir/NGS-VDB.cpp.o" +/usr/bin/ranlib ../../ilib/libngs-vdb.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3.0.9 samview.3 -[ 57%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -MF CMakeFiles/srf-load.dir/loader-fmt.c.o.d -o CMakeFiles/srf-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c +[ 16%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview.3 samview +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c -make -f tools/loaders/cg-load/CMakeFiles/cg-load.dir/build.make tools/loaders/cg-load/CMakeFiles/cg-load.dir/depend -[ 58%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -c 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/CMakeFiles/general-loader.dir/DependInfo.cmake "--color=" -[ 59%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -[ 59%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o -MF CMakeFiles/fastq-load.dir/loader.c.o.d -o CMakeFiles/fastq-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -MF CMakeFiles/srf-load.dir/loader.c.o.d -o CMakeFiles/srf-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c -make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/cg-load/CMakeFiles/cg-load.dir/build.make tools/loaders/cg-load/CMakeFiles/cg-load.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 59%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/general-loader.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/general-loader.cpp.o -MF CMakeFiles/general-loader.dir/general-loader.cpp.o.d -o CMakeFiles/general-loader.dir/general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/general-loader.cpp -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump.dir/link.d "CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o" "CMakeFiles/vdb-dump.dir/vdb_info.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump.c.o" -o ../../../bin/vdb-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-dump.3.0.9 -cd 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o -MF CMakeFiles/helicos-load.dir/run-xml.c.o.d -o CMakeFiles/helicos-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c -[ 59%] Linking C executable ../../../bin/illumina-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-load.dir/link.txt --verbose=1 -[ 60%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3 vdb-dump -[ 60%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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'WriteSoftwareVersionsMeta': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/run-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -[ 60%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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target vdb-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o -MF CMakeFiles/general-loader.dir/protocol-parser.cpp.o.d -o CMakeFiles/general-loader.dir/protocol-parser.cpp.o -c 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In function 'DB_Fini': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c:229:65: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 229 | if( (rc = KLoaderMeta_Write(node, p->argv0, __DATE__, "Complete Genomics", KAppVersion())) != 0 ) { - | ^~~~~~~~ -[ 60%] Linking C executable ../../../bin/fasterq-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fasterq-dump.dir/link.txt --verbose=1 -[ 61%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix 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CMakeFiles/general-loader.dir/database-loader.cpp.o.d -o CMakeFiles/general-loader.dir/database-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 62%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c -[ 62%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o -[ 63%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o -MF CMakeFiles/sff-load.dir/writer-454.c.o.d -o CMakeFiles/sff-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -MF CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o.d -o CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp -[ 63%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c -[ 64%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/sff-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/latf-load.dir/link.d "CMakeFiles/latf-load.dir/spot-assembler.c.o" "CMakeFiles/latf-load.dir/common-writer.c.o" "CMakeFiles/latf-load.dir/sequence-writer.c.o" "CMakeFiles/latf-load.dir/common-reader.c.o" "CMakeFiles/latf-load.dir/fastq-reader.c.o" "CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o" "CMakeFiles/latf-load.dir/zz_fastq-lex.c.o" "CMakeFiles/latf-load.dir/id2name.c.o" "CMakeFiles/latf-load.dir/fastq-loader.c.o" "CMakeFiles/latf-load.dir/loader-imp.c.o" -o ../../../bin/latf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f latf-load.3.0.9 -[ 64%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -MF CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o.d -o CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv latf-load latf-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3.0.9 latf-load.3 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-load.dir/link.d "CMakeFiles/illumina-load.dir/pstring.c.o" "CMakeFiles/illumina-load.dir/common-xml.c.o" "CMakeFiles/illumina-load.dir/experiment-xml.c.o" "CMakeFiles/illumina-load.dir/run-xml.c.o" "CMakeFiles/illumina-load.dir/loader-file.c.o" "CMakeFiles/illumina-load.dir/loader-fmt.c.o" "CMakeFiles/illumina-load.dir/sra-writer.c.o" "CMakeFiles/illumina-load.dir/loader.c.o" "CMakeFiles/illumina-load.dir/writer-illumina.c.o" "CMakeFiles/illumina-load.dir/illumina-fmt.c.o" -o ../../../bin/illumina-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3 latf-load -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-load illumina-load.3.0.9 -[ 65%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3.0.9 illumina-load.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5dir.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-load.3 illumina-load -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 65%] Built target latf-load -[ 65%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -[ 65%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -MF CMakeFiles/sff-load.dir/sff-fmt.c.o.d -o CMakeFiles/sff-load.dir/sff-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sff-fmt.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5file.c -[ 65%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o -[ 65%] Built target illumina-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o -MF CMakeFiles/helicos-load.dir/sra-writer.c.o.d -o CMakeFiles/helicos-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fasterq-dump.dir/link.d 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"CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o" "CMakeFiles/fasterq-dump.dir/special_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o" "CMakeFiles/fasterq-dump.dir/align_iter.c.o" "CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o" "CMakeFiles/fasterq-dump.dir/db_join.c.o" "CMakeFiles/fasterq-dump.dir/tbl_join.c.o" "CMakeFiles/fasterq-dump.dir/temp_registry.c.o" "CMakeFiles/fasterq-dump.dir/copy_machine.c.o" "CMakeFiles/fasterq-dump.dir/multi_writer.c.o" "CMakeFiles/fasterq-dump.dir/concatenator.c.o" "CMakeFiles/fasterq-dump.dir/ref_inventory.c.o" "CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o" -o ../../../bin/fasterq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fasterq-dump.3.0.9 -[ 65%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -MF CMakeFiles/srf-load.dir/srf.c.o.d -o CMakeFiles/srf-load.dir/srf.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fasterq-dump fasterq-dump.3.0.9 -[ 65%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function 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-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); - | ^~~~~~~~ -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -MF CMakeFiles/fastq-load.dir/writer-454.c.o.d -o CMakeFiles/fastq-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:32: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/../database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); - | ^~~~~~~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3 fasterq-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fasterq-dump-driver -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c -[ 66%] Built target fasterq-dump -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:619:86: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 619 | REQUIRE_EQ ( string ( __DATE__), GetDbMetadataAttr ( "SOFTWARE/loader", "date" ) ); - | ^ -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o -MF CMakeFiles/fastq-load.dir/fastq-fmt.c.o.d -o CMakeFiles/fastq-load.dir/fastq-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/fastq-fmt.c -[ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-intervals.c -[ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-dnbs.c -[ 66%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/testsource.cpp.o -MF CMakeFiles/test-general-loader.dir/testsource.cpp.o.d -o CMakeFiles/test-general-loader.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp -[ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -MF CMakeFiles/cg-load.dir/factory-mappings.c.o.d -o CMakeFiles/cg-load.dir/factory-mappings.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c -[ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -MF CMakeFiles/cg-load.dir/factory-reads.c.o.d -o CMakeFiles/cg-load.dir/factory-reads.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-reads.c -[ 66%] Linking C executable ../../../bin/sra-stat -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-stat.dir/link.txt --verbose=1 -[ 66%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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executable ../../../bin/sam-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o -MF CMakeFiles/srf-load.dir/srf-fmt.c.o.d -o CMakeFiles/srf-load.dir/srf-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-fmt.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-dump.dir/link.txt --verbose=1 -[ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -MF CMakeFiles/cg-load.dir/factory-tag-lfr.c.o.d -o CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-tag-lfr.c -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -MF CMakeFiles/srf-load.dir/writer-illumina.c.o.d -o CMakeFiles/srf-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c -[ 66%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -MF CMakeFiles/cg-load.dir/f1_3.c.o.d -o CMakeFiles/cg-load.dir/f1_3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_3.c -[ 66%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -MF CMakeFiles/pacbio-load.dir/pl-context.c.o.d -o CMakeFiles/pacbio-load.dir/pl-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-context.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -MF CMakeFiles/helicos-load.dir/writer-helicos.c.o.d -o CMakeFiles/helicos-load.dir/writer-helicos.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-helicos.c -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o -MF CMakeFiles/helicos-load.dir/loader.c.o.d -o CMakeFiles/helicos-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o -MF CMakeFiles/srf-load.dir/ztr-illumina.c.o.d -o CMakeFiles/srf-load.dir/ztr-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-illumina.c -[ 66%] Linking C executable ../../../bin/sff-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-load.dir/link.txt --verbose=1 -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pacbio-fmt.c -[ 66%] Linking C executable ../../../bin/abi-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-load.dir/link.txt --verbose=1 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-stat.dir/link.d "CMakeFiles/sra-stat.dir/assembly-statistics.c.o" "CMakeFiles/sra-stat.dir/sra.c.o" "CMakeFiles/sra-stat.dir/sra-stat.c.o" -o ../../../bin/sra-stat ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-stat.3.0.9 -make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-stat sra-stat.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3.0.9 sra-stat.3 -make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3 sra-stat -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 66%] Linking CXX executable ../../../bin/qa-stats -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qa-stats.dir/link.txt --verbose=1 -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -[ 66%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -MF CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o.d -o CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-gw-dumper.cpp -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-dump.dir/link.d "CMakeFiles/sam-dump.dir/inputfiles.c.o" "CMakeFiles/sam-dump.dir/perf_log.c.o" "CMakeFiles/sam-dump.dir/rna_splice_log.c.o" "CMakeFiles/sam-dump.dir/sam-dump-opts.c.o" "CMakeFiles/sam-dump.dir/out_redir.c.o" "CMakeFiles/sam-dump.dir/sam-hdr.c.o" "CMakeFiles/sam-dump.dir/sam-hdr1.c.o" "CMakeFiles/sam-dump.dir/matecache.c.o" "CMakeFiles/sam-dump.dir/read_fkt.c.o" "CMakeFiles/sam-dump.dir/sam-aligned.c.o" "CMakeFiles/sam-dump.dir/sam-unaligned.c.o" "CMakeFiles/sam-dump.dir/md_flag.c.o" "CMakeFiles/sam-dump.dir/cg_tools.c.o" "CMakeFiles/sam-dump.dir/sam-dump.c.o" "CMakeFiles/sam-dump.dir/sam-dump3.c.o" "CMakeFiles/sam-dump.dir/dyn_string.c.o" -o ../../../bin/sam-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build.make tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sam-dump.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sam-dump sam-dump.3.0.9 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3.0.9 sam-dump.3 -[ 66%] Built target sra-stat -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings15_Read': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:248:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] - 248 | if( tmp[0] < 33 || tmp[0] > 126 ) { - | ~~~^~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:225:14: note: 'tmp' declared here - 225 | char tmp[2]; - | ^~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o -MF CMakeFiles/helicos-load.dir/helicos-fmt.c.o.d -o CMakeFiles/helicos-load.dir/helicos-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/helicos-fmt.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3 sam-dump -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sam-dump-driver -[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o -MF CMakeFiles/srf-load.dir/srf-illumina.c.o.d -o CMakeFiles/srf-load.dir/srf-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-illumina.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/DependInfo.cmake "--color=" -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); - | ^~~~~~~~ -[ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -[ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/db-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c -[ 67%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/makeinputs.cpp.o -MF CMakeFiles/makeinputs.dir/makeinputs.cpp.o.d -o CMakeFiles/makeinputs.dir/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/makeinputs.cpp -[ 67%] Built target sam-dump -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 67%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -MF CMakeFiles/cg-load.dir/f1_5.c.o.d -o CMakeFiles/cg-load.dir/f1_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_5.c -[ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o -[ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o -MF CMakeFiles/srf-load.dir/writer-absolid.c.o.d -o CMakeFiles/srf-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c -[ 67%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-load.dir/link.d "CMakeFiles/sff-load.dir/pstring.c.o" "CMakeFiles/sff-load.dir/common-xml.c.o" "CMakeFiles/sff-load.dir/experiment-xml.c.o" "CMakeFiles/sff-load.dir/run-xml.c.o" "CMakeFiles/sff-load.dir/loader-file.c.o" "CMakeFiles/sff-load.dir/loader-fmt.c.o" "CMakeFiles/sff-load.dir/sra-writer.c.o" "CMakeFiles/sff-load.dir/loader.c.o" "CMakeFiles/sff-load.dir/writer-454.c.o" "CMakeFiles/sff-load.dir/writer-ion-torrent.c.o" "CMakeFiles/sff-load.dir/sff-fmt.c.o" -o ../../../bin/sff-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -MF CMakeFiles/makeinputs.dir/testsource.cpp.o.d -o CMakeFiles/makeinputs.dir/testsource.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp -[ 67%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -MF CMakeFiles/pacbio-load.dir/pl-tools.c.o.d -o CMakeFiles/pacbio-load.dir/pl-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-tools.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-load sff-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3.0.9 sff-load.3 -[ 67%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -[ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3 sff-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -MF CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o.d -o CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-load.dir/link.d "CMakeFiles/abi-load.dir/pstring.c.o" "CMakeFiles/abi-load.dir/common-xml.c.o" "CMakeFiles/abi-load.dir/experiment-xml.c.o" "CMakeFiles/abi-load.dir/run-xml.c.o" "CMakeFiles/abi-load.dir/loader-file.c.o" "CMakeFiles/abi-load.dir/loader-fmt.c.o" "CMakeFiles/abi-load.dir/sra-writer.c.o" "CMakeFiles/abi-load.dir/loader.c.o" "CMakeFiles/abi-load.dir/writer-absolid.c.o" "CMakeFiles/abi-load.dir/absolid-fmt.c.o" -o ../../../bin/abi-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-load abi-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3.0.9 abi-load.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3 abi-load -[ 67%] Built target sff-load -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/depend -[ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c +[ 16%] Built target ngs-vdb make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/DependInfo.cmake "--color=" -[ 67%] Built target abi-load -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings22_Read': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:311:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] - 311 | if( tmp[0] < 33 || tmp[0] > 126 ) { - | ~~~^~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:287:14: note: 'tmp' declared here - 287 | char tmp[2]; - | ^~~ -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build.make tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 67%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c -[ 67%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o -[ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o -MF CMakeFiles/srf-load.dir/ztr-absolid.c.o.d -o CMakeFiles/srf-load.dir/ztr-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-absolid.c -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/qa-stats.dir/link.d "CMakeFiles/qa-stats.dir/main.cpp.o" "CMakeFiles/qa-stats.dir/input.cpp.o" "CMakeFiles/qa-stats.dir/output.cpp.o" -o ../../../bin/qa-stats -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -MF CMakeFiles/srf-load.dir/ztr-huffman.c.o.d -o CMakeFiles/srf-load.dir/ztr-huffman.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-huffman.c -[ 68%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o -MF CMakeFiles/pacbio-load.dir/pl-zmw.c.o.d -o CMakeFiles/pacbio-load.dir/pl-zmw.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-zmw.c +[ 16%] Built target samview +[ 16%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/col-pair.c.o -MF CMakeFiles/sra-sort.dir/col-pair.c.o.d -o CMakeFiles/sra-sort.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build.make tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/build -[ 68%] Building CXX object tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/vschema/CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -MF CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o.d -o CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -[ 68%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -MF CMakeFiles/sra-sort.dir/run.c.o.d -o CMakeFiles/sra-sort.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -MF CMakeFiles/srf-load.dir/srf-absolid.c.o.d -o CMakeFiles/srf-load.dir/srf-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-absolid.c -[ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -MF CMakeFiles/sra-sort-cg.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c -[ 68%] Built target qa-stats -[ 68%] Building C object tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o +[ 16%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/sequence-writer.c.o -MF CMakeFiles/fastqloader.dir/sequence-writer.c.o.d -o CMakeFiles/fastqloader.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c +[ 16%] Building C object tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-lock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-lock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-lock/CMakeFiles/vdb-lock.dir/vdb-lock.c.o -MF CMakeFiles/vdb-lock.dir/vdb-lock.c.o.d -o CMakeFiles/vdb-lock.dir/vdb-lock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-lock/vdb-lock.c -[ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -[ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c -[ 68%] Linking C executable ../../../bin/fastq-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-load.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -MF CMakeFiles/sra-sort.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c -[ 68%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -MF CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o.d -o CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-basecalls_cmn.c -[ 68%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o -MF CMakeFiles/sra-sort.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c -[ 69%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o.d -o 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/EBI_ReferenceSequence.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-gw-dumper.dir/link.d "CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o" -o ../../../../test-bin/test-gw-dumper ../../../../ilib/libgeneral-writer.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 17%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o -MF 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tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_button.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-metrics.c -[ 70%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -[ 70%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o -MF CMakeFiles/sra-sort-cg.dir/run.c.o.d -o CMakeFiles/sra-sort-cg.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c -[ 70%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -MF CMakeFiles/sra-sort-cg.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o -MF CMakeFiles/pacbio-load.dir/pl-passes.c.o.d -o CMakeFiles/pacbio-load.dir/pl-passes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-passes.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -MF CMakeFiles/pacbio-load.dir/pl-regions.c.o.d -o CMakeFiles/pacbio-load.dir/pl-regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-regions.c -[ 70%] Linking CXX executable ../../../test-bin/Test_Drivertool_SDLResponse -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_SDLResponse.dir/link.txt --verbose=1 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-load.dir/link.d "CMakeFiles/fastq-load.dir/pstring.c.o" "CMakeFiles/fastq-load.dir/common-xml.c.o" "CMakeFiles/fastq-load.dir/experiment-xml.c.o" "CMakeFiles/fastq-load.dir/run-xml.c.o" "CMakeFiles/fastq-load.dir/loader-file.c.o" "CMakeFiles/fastq-load.dir/loader-fmt.c.o" "CMakeFiles/fastq-load.dir/sra-writer.c.o" "CMakeFiles/fastq-load.dir/loader.c.o" "CMakeFiles/fastq-load.dir/writer-illumina.c.o" "CMakeFiles/fastq-load.dir/writer-454.c.o" "CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o" "CMakeFiles/fastq-load.dir/fastq-fmt.c.o" -o ../../../bin/fastq-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp: In function 'void run(const char*, bool, const int32_t*, const int32_t*, const int8_t*, int)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:76:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] + 76 | delete gw; + | ^~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:45:20: note: 'gw' was declared here + 45 | GeneralWriter *gw; + | ^~ +[ 17%] Building C object tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-unlock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -MF CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o.d -o CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock/vdb-unlock.c +[ 17%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadCollectionItf.cpp +[ 17%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentIteratorItf.cpp +[ 18%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/common-reader.c.o -MF CMakeFiles/fastqloader.dir/common-reader.c.o.d -o CMakeFiles/fastqloader.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c +In file included from /usr/include/c++/14/ios:42, + from /usr/include/c++/14/ostream:40, + from /usr/include/c++/14/iostream:41, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc/general-writer/general-writer.hpp:34, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:30: +In static member function 'static std::size_t std::char_traits::length(const char_type*)', + inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const _CharT*, const _Alloc&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/14/bits/basic_string.h:653:49, + inlined from 'void run(const char*, TestCaseType, const std::string*, int)' at /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:77:25: +/usr/include/c++/14/bits/char_traits.h:391:32: warning: 'db_schema' may be used uninitialized [-Wmaybe-uninitialized] + 391 | return __builtin_strlen(__s); + | ~~~~~~~~~~~~~~~~^~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp: In function 'void run(const char*, TestCaseType, const std::string*, int)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:57:21: note: 'db_schema' was declared here + 57 | const char* db_schema; + | ^~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:101:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] + 101 | delete gw; + | ^~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:54:20: note: 'gw' was declared here + 54 | GeneralWriter *gw; + | ^~ +[ 18%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_checkbox.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_checkbox.c.o -MF CMakeFiles/tui.dir/tui_widget_checkbox.c.o.d -o CMakeFiles/tui.dir/tui_widget_checkbox.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_checkbox.c /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-lock.dir/link.d "CMakeFiles/vdb-lock.dir/vdb-lock.c.o" -o ../../../bin/vdb-lock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -[ 71%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c -[ 71%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-lock.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o -MF CMakeFiles/pacbio-load.dir/pl-progress.c.o.d -o CMakeFiles/pacbio-load.dir/pl-progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-progress.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-load fastq-load.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-lock vdb-lock.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3.0.9 fastq-load.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3 fastq-load -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 71%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3.0.9 vdb-lock.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o -MF CMakeFiles/pacbio-load.dir/pacbio-load.c.o.d -o CMakeFiles/pacbio-load.dir/pacbio-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-lock.3 vdb-lock -[ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -MF CMakeFiles/cg-load.dir/f1_7.c.o.d -o CMakeFiles/cg-load.dir/f1_7.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_7.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/DependInfo.cmake "--color=" -[ 71%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c -[ 71%] Built target fastq-load +[ 18%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o -MF CMakeFiles/ngs.dir/SRA_Statistics.c.o.d -o CMakeFiles/ngs.dir/SRA_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Statistics.c +[ 18%] Linking C executable ../../../bin/vdb-unlock +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-unlock.dir/link.txt --verbose=1 +[ 18%] Built target vdb-lock make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/depend -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build.make tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache/CMakeFiles/align-cache.dir/DependInfo.cmake "--color=" +[ 18%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_grid.c.o -MF CMakeFiles/tui.dir/tui_widget_grid.c.o.d -o CMakeFiles/tui.dir/tui_widget_grid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_grid.c +[ 18%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/makeinputs.dir/testsource.cpp.o -MF 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-D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/row-set.c.o -MF CMakeFiles/sra-sort.dir/row-set.c.o.d -o CMakeFiles/sra-sort.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c +[ 19%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -MF CMakeFiles/align-cache.dir/align-cache.cpp.o.d -o CMakeFiles/align-cache.dir/align-cache.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/align-cache.cpp +[ 19%] Linking CXX executable ../../../../../test-bin/bio-end-makeinputs +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/bio-end-makeinputs.dir/link.txt --verbose=1 +[ 19%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-unlock.dir/link.d "CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o" -o ../../../bin/vdb-unlock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +[ 19%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-unlock.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/col-pair.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-unlock vdb-unlock.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3.0.9 vdb-unlock.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3 vdb-unlock +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 19%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/fastq-reader.c.o -MF CMakeFiles/fastqloader.dir/fastq-reader.c.o.d -o CMakeFiles/fastqloader.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c +[ 19%] Built target vdb-unlock make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract/CMakeFiles/ccextract.dir/DependInfo.cmake "--color=" -[ 71%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -MF CMakeFiles/cg-load.dir/f2_2.c.o.d -o CMakeFiles/cg-load.dir/f2_2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_2.c -[ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -MF CMakeFiles/cg-load.dir/f2_0.c.o.d -o CMakeFiles/cg-load.dir/f2_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_0.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/internal/align-cache/CMakeFiles/align-cache.dir/build.make tools/internal/align-cache/CMakeFiles/align-cache.dir/build -[ 72%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -[ 72%] Building C object tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-unlock\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/vdb-unlock/CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -MF CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o.d -o CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/vdb-unlock/vdb-unlock.c -[ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -MF CMakeFiles/cg-load.dir/f2_4.c.o.d -o CMakeFiles/cg-load.dir/f2_4.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_4.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/ccextract/CMakeFiles/ccextract.dir/build.make tools/internal/ccextract/CMakeFiles/ccextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c: In function 'pacbio_meta_entry': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c:219:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 219 | rc = KLoaderMeta_Write( node, toolname, __DATE__, "PacBio HDF5", KAppVersion() ); - | ^~~~~~~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/align-cache.cpp.o -MF CMakeFiles/align-cache.dir/align-cache.cpp.o.d -o CMakeFiles/align-cache.dir/align-cache.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/align-cache.cpp -[ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o -MF CMakeFiles/cg-load.dir/f2_5.c.o.d -o CMakeFiles/cg-load.dir/f2_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_5.c +[ 19%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/Refcount.cpp +[ 19%] Building C object tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ccextract\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -MF CMakeFiles/ccextract.dir/ccextract.c.o.d -o CMakeFiles/ccextract.dir/ccextract.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract/ccextract.c +[ 20%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroupIterator.cpp +[ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c +[ 20%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bio-end-makeinputs.dir/link.d "CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o" -o ../../../../../test-bin/bio-end-makeinputs ../../../../../ilib/libgeneral-writer.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 20%] Built target bio-end-makeinputs make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/depend -[ 72%] Linking C executable ../../../bin/sra-sort make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat/CMakeFiles/copycat.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort.dir/link.txt --verbose=1 -make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/depend +[ 21%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_AlignmentItf.cpp +[ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_inputline.c.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/DependInfo.cmake "--color=" -[ 72%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o +[ 21%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o +[ 21%] Linking CXX executable ../../../../../test-bin/idx-text-makeinputs +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o -MF CMakeFiles/copycat.dir/copycat.c.o.d -o CMakeFiles/copycat.dir/copycat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/copycat.c +[ 21%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-makeinputs.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c +[ 21%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupItf.cpp +[ 21%] Building CXX object tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/align-cache\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/internal/align-cache/CMakeFiles/align-cache.dir/helper.cpp.o -MF CMakeFiles/align-cache.dir/helper.cpp.o.d -o CMakeFiles/align-cache.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/align-cache/helper.cpp -[ 72%] Building C object tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ccextract\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/ccextract/CMakeFiles/ccextract.dir/ccextract.c.o -MF CMakeFiles/ccextract.dir/ccextract.c.o.d -o CMakeFiles/ccextract.dir/ccextract.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/ccextract/ccextract.c -[ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o -MF CMakeFiles/cg-load.dir/file.c.o.d -o CMakeFiles/cg-load.dir/file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file.c +[ 21%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -MF CMakeFiles/ngs-disp.dir/ReadItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ReadItf.cpp +[ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/meta-pair.c.o -MF CMakeFiles/sra-sort.dir/meta-pair.c.o.d -o CMakeFiles/sra-sort.dir/meta-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/meta-pair.c +[ 21%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_DB_ReadCollection.c +[ 21%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_label.c.o -MF CMakeFiles/tui.dir/tui_widget_label.c.o.d -o CMakeFiles/tui.dir/tui_widget_label.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_label.c +[ 21%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o +[ 21%] Linking C executable ../../../bin/ccextract +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccextract.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/row-set.c +[ 21%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrorMsg.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-makeinputs.dir/link.d "CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o" -o ../../../../../test-bin/idx-text-makeinputs ../../../../../ilib/libgeneral-writer.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/internal/copycat/CMakeFiles/copycat.dir/build.make tools/internal/copycat/CMakeFiles/copycat.dir/build +[ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_progress.c.o -MF CMakeFiles/tui.dir/tui_widget_progress.c.o.d -o CMakeFiles/tui.dir/tui_widget_progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_progress.c +[ 22%] Built target idx-text-makeinputs +make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build.make tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -MF CMakeFiles/cg-load.dir/file-version-factory.c.o.d -o CMakeFiles/cg-load.dir/file-version-factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file-version-factory.c +[ 22%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadGroup.cpp +[ 22%] Building C object tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-unused-result -MD -MT tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o -MF CMakeFiles/make-read-filter.dir/make-read-filter.c.o.d -o CMakeFiles/make-read-filter.dir/make-read-filter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter/make-read-filter.c +[ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/simple-row-set.c +[ 22%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o -MF CMakeFiles/copycat.dir/ccfileformat.c.o.d -o CMakeFiles/copycat.dir/ccfileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c +[ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_radiobox.c.o -MF CMakeFiles/tui.dir/tui_widget_radiobox.c.o.d -o CMakeFiles/tui.dir/tui_widget_radiobox.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_radiobox.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ccextract.dir/link.d CMakeFiles/ccextract.dir/ccextract.c.o -o ../../../bin/ccextract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libxml2.so +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ccextract.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ccextract ccextract.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3.0.9 ccextract.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3 ccextract +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 22%] Built target ccextract make -f tools/internal/md5cp/CMakeFiles/md5cp.dir/build.make tools/internal/md5cp/CMakeFiles/md5cp.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/md5cp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp/CMakeFiles/md5cp.dir/DependInfo.cmake "--color=" -[ 72%] Building C object tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-unused-result -MD -MT tools/internal/make-read-filter/CMakeFiles/make-read-filter.dir/make-read-filter.c.o -MF CMakeFiles/make-read-filter.dir/make-read-filter.c.o.d -o CMakeFiles/make-read-filter.dir/make-read-filter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/make-read-filter/make-read-filter.c -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_SDLResponse.dir/link.d "CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o" -o ../../../test-bin/Test_Drivertool_SDLResponse -[ 72%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 72%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfileformat.c.o -MF CMakeFiles/copycat.dir/ccfileformat.c.o.d -o CMakeFiles/copycat.dir/ccfileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c make -f tools/internal/md5cp/CMakeFiles/md5cp.dir/build.make tools/internal/md5cp/CMakeFiles/md5cp.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/copycat.c.o -MF CMakeFiles/copycat.dir/copycat.c.o.d -o CMakeFiles/copycat.dir/copycat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/copycat.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 22%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); | ^ -[ 72%] Linking C executable ../../../bin/vdb-unlock -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/vdb-unlock && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-unlock.dir/link.txt --verbose=1 -[ 73%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o -MF CMakeFiles/ngs.dir/SRA_Read.c.o.d -o CMakeFiles/ngs.dir/SRA_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_Read.c +[ 22%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o +[ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/dir-pair.c.o -MF CMakeFiles/sra-sort.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c +[ 22%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -MF CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o.d -o CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -MF CMakeFiles/tui.dir/tui_widget_spin_edit.c.o.d -o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_spin_edit.c +[ 22%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o +[ 22%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/mapping-row-set.c +[ 22%] Building C object tools/internal/md5cp/CMakeFiles/md5cp.dir/md5cp.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/md5cp/CMakeFiles/md5cp.dir/md5cp.c.o -MF CMakeFiles/md5cp.dir/md5cp.c.o.d -o CMakeFiles/md5cp.dir/md5cp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/md5cp/md5cp.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadGroupIteratorItf.cpp +[ 22%] Building C object tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/fastqloader.dir/id2name.c.o -MF CMakeFiles/fastqloader.dir/id2name.c.o.d -o CMakeFiles/fastqloader.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c: In function 'CCFileFormatIsFastq': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:275:27: warning: 'seq_len' may be used uninitialized [-Wmaybe-uninitialized] + 275 | if(quality_values_len != seq_len) + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:193:12: note: 'seq_len' was declared here + 193 | size_t seq_len,quality_values_len,seq_id_len; + | ^~~~~~~ +[ 23%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/run-source.cpp.o -MF CMakeFiles/sratools.dir/run-source.cpp.o.d -o CMakeFiles/sratools.dir/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp +[ 23%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupIteratorItf.cpp +[ 23%] 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tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_string_list.c.o -MF CMakeFiles/tui.dir/tui_widget_string_list.c.o.d -o CMakeFiles/tui.dir/tui_widget_string_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_string_list.c +[ 23%] Building CXX object ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/adapter/CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/adapter/ErrBlock.cpp +[ 23%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -MF CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/FragmentItf.cpp +[ 23%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o -MF CMakeFiles/copycat.dir/cctree.c.o.d -o CMakeFiles/copycat.dir/cctree.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree.c +[ 24%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cccat.c.o -MF CMakeFiles/copycat.dir/cccat.c.o.d -o CMakeFiles/copycat.dir/cccat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cccat.c -[ 73%] Built target Test_Drivertool_SDLResponse +[ 24%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/ReadIterator.cpp +[ 24%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c +[ 24%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -MF CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o.d -o CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sorting-row-set.c +[ 24%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -MF CMakeFiles/tui.dir/tui_widget_tabhdr.c.o.d -o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/tui_widget_tabhdr.c +[ 24%] Linking C executable ../../../bin/md5cp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cmake -E cmake_link_script CMakeFiles/md5cp.dir/link.txt --verbose=1 +[ 24%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroup.c +[ 24%] Linking C executable ../../../bin/make-read-filter +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/make-read-filter.dir/link.txt --verbose=1 +[ 24%] Building C object tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"libs/tui\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/.. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/tui/CMakeFiles/tui.dir/linux/systui.c.o -MF CMakeFiles/tui.dir/linux/systui.c.o.d -o CMakeFiles/tui.dir/linux/systui.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/tui/linux/systui.c +[ 24%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadItf.cpp +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/md5cp.dir/link.d CMakeFiles/md5cp.dir/md5cp.c.o -o ../../../bin/md5cp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f md5cp.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv md5cp md5cp.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3.0.9 md5cp.3 +[ 24%] Linking CXX static library ../../../ilib/libngs-adapt-c++.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/adapter && /usr/bin/cmake -P CMakeFiles/ngs-adapt-c++.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3 md5cp +[ 24%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/meta-pair.c.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o -MF CMakeFiles/copycat.dir/cctar.c.o.d -o CMakeFiles/copycat.dir/cctar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctar.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o -MF CMakeFiles/cg-load.dir/formats.c.o.d -o CMakeFiles/cg-load.dir/formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/formats.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree.c.o -MF CMakeFiles/copycat.dir/cctree.c.o.d -o CMakeFiles/copycat.dir/cctree.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o -MF CMakeFiles/copycat.dir/cctree-dump.c.o.d -o CMakeFiles/copycat.dir/cctree-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree-dump.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3 make-read-filter +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build.make tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/build -make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/depend +[ 24%] Built target make-read-filter make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy/CMakeFiles/meta-copy.dir/DependInfo.cmake "--color=" -[ 73%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -[ 73%] Linking C executable ../../../bin/helicos-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/helicos-load.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -MF CMakeFiles/cg-load.dir/writer-algn.c.o.d -o CMakeFiles/cg-load.dir/writer-algn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-algn.c -[ 74%] Building C object tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o +[ 24%] Linking CXX executable ../../../bin/align-cache +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-cache.dir/link.txt --verbose=1 +/usr/bin/ar qc ../../../ilib/libngs-adapt-c++.a "CMakeFiles/ngs-adapt-c++.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ReadItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/StringItf.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/Refcount.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrorMsg.cpp.o" "CMakeFiles/ngs-adapt-c++.dir/ErrBlock.cpp.o" +/usr/bin/ranlib ../../../ilib/libngs-adapt-c++.a +[ 24%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctree-dump.c.o -MF CMakeFiles/copycat.dir/cctree-dump.c.o.d -o CMakeFiles/copycat.dir/cctree-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctree-dump.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building C object tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-cmp\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-cmp/CMakeFiles/meta-cmp.dir/meta-cmp.c.o -MF CMakeFiles/meta-cmp.dir/meta-cmp.c.o.d -o CMakeFiles/meta-cmp.dir/meta-cmp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-cmp/meta-cmp.c -[ 74%] Linking CXX executable ../../../../test-bin/test-gw-dumper -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-gw-dumper.dir/link.txt --verbose=1 -[ 74%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -MF CMakeFiles/copycat.dir/ccsra.c.o.d -o CMakeFiles/copycat.dir/ccsra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsra.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort.dir/link.d "CMakeFiles/sra-sort.dir/caps.c.o" "CMakeFiles/sra-sort.dir/mem.c.o" "CMakeFiles/sra-sort.dir/membank.c.o" "CMakeFiles/sra-sort.dir/paged-membank.c.o" "CMakeFiles/sra-sort.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort.dir/except.c.o" "CMakeFiles/sra-sort.dir/idx-mapping.c.o" "CMakeFiles/sra-sort.dir/map-file.c.o" "CMakeFiles/sra-sort.dir/col-pair.c.o" "CMakeFiles/sra-sort.dir/row-set.c.o" "CMakeFiles/sra-sort.dir/simple-row-set.c.o" "CMakeFiles/sra-sort.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort.dir/meta-pair.c.o" "CMakeFiles/sra-sort.dir/dir-pair.c.o" "CMakeFiles/sra-sort.dir/tbl-pair.c.o" "CMakeFiles/sra-sort.dir/db-pair.c.o" "CMakeFiles/sra-sort.dir/glob-poslen.c.o" "CMakeFiles/sra-sort.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort.dir/buff-writer.c.o" "CMakeFiles/sra-sort.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort.dir/run.c.o" "CMakeFiles/sra-sort.dir/sra-sort.c.o" "CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort.dir/csra-tbl.c.o" "CMakeFiles/sra-sort.dir/csra-pair.c.o" -o ../../../bin/sra-sort /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort sra-sort.3.0.9 -[ 74%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-dnbs.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build.make tools/internal/meta-copy/CMakeFiles/meta-copy.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3.0.9 sra-sort.3 +[ 25%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3 sra-sort -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-unlock.dir/link.d "CMakeFiles/vdb-unlock.dir/vdb-unlock.c.o" -o ../../../bin/vdb-unlock /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-unlock.3.0.9 -[ 74%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -MF CMakeFiles/copycat.dir/ccsubchunk.c.o.d -o CMakeFiles/copycat.dir/ccsubchunk.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsubchunk.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-unlock vdb-unlock.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3.0.9 vdb-unlock.3 -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp: In function 'void run(const char*, bool, const int32_t*, const int32_t*, const int8_t*, int)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:76:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] - 76 | delete gw; - | ^~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/bio-end/makeinputs.cpp:45:20: note: 'gw' was declared here - 45 | GeneralWriter *gw; - | ^~ -[ 74%] Building C object tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -MF CMakeFiles/meta-copy.dir/meta-copy.c.o.d -o CMakeFiles/meta-copy.dir/meta-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy/meta-copy.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-unlock.3 vdb-unlock -[ 74%] Linking C executable ../../../bin/srf-load -[ 74%] Built target sra-sort -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/srf-load.dir/link.txt --verbose=1 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-intervals.c -[ 75%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-seq.c.o -MF CMakeFiles/cg-load.dir/writer-seq.c.o.d -o CMakeFiles/cg-load.dir/writer-seq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-seq.c -[ 75%] Built target vdb-unlock -[ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -MF CMakeFiles/copycat.dir/ccfile.c.o.d -o CMakeFiles/copycat.dir/ccfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfile.c -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c: In function 'CCFileFormatIsFastq': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:275:27: warning: 'seq_len' may be used uninitialized [-Wmaybe-uninitialized] - 275 | if(quality_values_len != seq_len) - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfileformat.c:193:12: note: 'seq_len' was declared here - 193 | size_t seq_len,quality_values_len,seq_id_len; - | ^~~~~~~ -[ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -[ 75%] Linking C executable ../../../bin/sra-sort-cg -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -MF CMakeFiles/copycat.dir/kff/fileformat.c.o.d -o CMakeFiles/copycat.dir/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort-cg.dir/link.txt --verbose=1 -[ 75%] Linking C executable ../../../bin/pacbio-loadxml -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-loadxml.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadGroupItf.cpp +[ 25%] Built target ngs-adapt-c++ make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair/CMakeFiles/meta-repair.dir/DependInfo.cmake "--color=" -make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/depend -In file included from /usr/include/c++/14/ios:42, - from /usr/include/c++/14/ostream:40, - from /usr/include/c++/14/iostream:41, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc/general-writer/general-writer.hpp:34, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:30: -In static member function 'static std::size_t std::char_traits::length(const char_type*)', - inlined from 'std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::basic_string(const _CharT*, const _Alloc&) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]' at /usr/include/c++/14/bits/basic_string.h:653:49, - inlined from 'void run(const char*, TestCaseType, const std::string*, int)' at /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:77:25: -/usr/include/c++/14/bits/char_traits.h:391:32: warning: 'db_schema' may be used uninitialized [-Wmaybe-uninitialized] - 391 | return __builtin_strlen(__s); - | ~~~~~~~~~~~~~~~~^~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp: In function 'void run(const char*, TestCaseType, const std::string*, int)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:57:21: note: 'db_schema' was declared here - 57 | const char* db_schema; - | ^~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:101:16: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] - 101 | delete gw; - | ^~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema/idx-text/makeinputs.cpp:54:20: note: 'gw' was declared here - 54 | GeneralWriter *gw; - | ^~ -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/DependInfo.cmake "--color=" -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] - 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); - | ^ -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-gw-dumper.dir/link.d "CMakeFiles/test-gw-dumper.dir/test-gw-dumper.cpp.o" -o ../../../../test-bin/test-gw-dumper ../../../../ilib/libgeneral-writer.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building C object tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/meta-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-copy/CMakeFiles/meta-copy.dir/meta-copy.c.o -MF CMakeFiles/meta-copy.dir/meta-copy.c.o.d -o CMakeFiles/meta-copy.dir/meta-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-copy/meta-copy.c +[ 25%] Linking C static library ../../../ilib/libfastqloader.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -P CMakeFiles/fastqloader.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build.make tools/internal/meta-repair/CMakeFiles/meta-repair.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 75%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o +[ 25%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o -MF CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadGroupInfo.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastqloader.dir/link.txt --verbose=1 +[ 25%] Building C object tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/meta-repair\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -MF CMakeFiles/meta-repair.dir/meta-repair.c.o.d -o CMakeFiles/meta-repair.dir/meta-repair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair/meta-repair.c +[ 25%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReadIteratorItf.cpp +/usr/bin/ar qc ../../../ilib/libfastqloader.a "CMakeFiles/fastqloader.dir/spot-assembler.c.o" "CMakeFiles/fastqloader.dir/common-writer.c.o" "CMakeFiles/fastqloader.dir/sequence-writer.c.o" "CMakeFiles/fastqloader.dir/common-reader.c.o" "CMakeFiles/fastqloader.dir/fastq-reader.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-grammar.c.o" "CMakeFiles/fastqloader.dir/zz_fastq-lex.c.o" CMakeFiles/fastqloader.dir/id2name.c.o +/usr/bin/ranlib ../../../ilib/libfastqloader.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StatisticsItf.cpp +[ 25%] Built target fastqloader +make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/DependInfo.cmake "--color=" +[ 25%] Linking CXX executable ../../../../test-bin/makeinputs +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/makeinputs.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o -MF CMakeFiles/copycat.dir/kff/ffext.c.o.d -o CMakeFiles/copycat.dir/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 25%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/dir-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/dir-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/dir-pair.c +[ 25%] Linking C static library ../../../../ilib/libtui.a +[ 26%] Building C object tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -P CMakeFiles/tui.dir/cmake_clean_target.cmake +[ 26%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Read.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Read.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Read.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -MF CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o.d -o CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/test-read-write-cursor.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-cache.dir/link.d "CMakeFiles/align-cache.dir/align-cache.cpp.o" "CMakeFiles/align-cache.dir/helper.cpp.o" -o ../../../bin/align-cache /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ^ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-cache.3.0.9 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-cache align-cache.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3.0.9 align-cache.3 +[ 26%] Linking C executable ../../../bin/meta-cmp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/tui && /usr/bin/cmake -E cmake_link_script CMakeFiles/tui.dir/link.txt --verbose=1 +[ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-cmp.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/db-pair.c.o -MF CMakeFiles/sra-sort.dir/db-pair.c.o.d -o CMakeFiles/sra-sort.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3 align-cache +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -MF CMakeFiles/ngs.dir/SRA_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReadCollection.c +[ 26%] Linking C executable ../../../bin/meta-copy +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-copy.dir/link.txt --verbose=1 +[ 26%] Built target align-cache make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/DependInfo.cmake "--color=" -[ 75%] Linking C executable ../../../bin/ccextract -[ 75%] Building C object tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/ccextract && /usr/bin/cmake -E cmake_link_script CMakeFiles/ccextract.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/meta-repair\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/meta-repair/CMakeFiles/meta-repair.dir/meta-repair.c.o -MF CMakeFiles/meta-repair.dir/meta-repair.c.o.d -o CMakeFiles/meta-repair.dir/meta-repair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/meta-repair/meta-repair.c -[ 75%] Linking C executable ../../../bin/meta-cmp -[ 75%] Built target test-gw-dumper -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-cmp && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-cmp.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build.make tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 76%] Building C object tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -MF CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o.d -o CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/test-read-write-cursor.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/helicos-load.dir/link.d "CMakeFiles/helicos-load.dir/pstring.c.o" "CMakeFiles/helicos-load.dir/common-xml.c.o" "CMakeFiles/helicos-load.dir/experiment-xml.c.o" "CMakeFiles/helicos-load.dir/run-xml.c.o" "CMakeFiles/helicos-load.dir/loader-file.c.o" "CMakeFiles/helicos-load.dir/loader-fmt.c.o" "CMakeFiles/helicos-load.dir/sra-writer.c.o" "CMakeFiles/helicos-load.dir/loader.c.o" "CMakeFiles/helicos-load.dir/writer-helicos.c.o" "CMakeFiles/helicos-load.dir/helicos-fmt.c.o" -o ../../../bin/helicos-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f helicos-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv helicos-load helicos-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3.0.9 helicos-load.3 -[ 76%] Building C object tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o +/usr/bin/ar qc ../../../../ilib/libtui.a CMakeFiles/tui.dir/dir_dlg.c.o CMakeFiles/tui.dir/eventring.c.o CMakeFiles/tui.dir/file_dlg.c.o CMakeFiles/tui.dir/line_policy.c.o CMakeFiles/tui.dir/screen.c.o CMakeFiles/tui.dir/string_cache.c.o CMakeFiles/tui.dir/tui.c.o CMakeFiles/tui.dir/tui_dlg.c.o CMakeFiles/tui.dir/tui_dlg_helper.c.o CMakeFiles/tui.dir/tui_menu.c.o CMakeFiles/tui.dir/tui_palette.c.o CMakeFiles/tui.dir/tui_std_dlg.c.o CMakeFiles/tui.dir/tui_widget.c.o CMakeFiles/tui.dir/tui_widget_button.c.o CMakeFiles/tui.dir/tui_widget_checkbox.c.o CMakeFiles/tui.dir/tui_widget_grid.c.o CMakeFiles/tui.dir/tui_widget_inputline.c.o CMakeFiles/tui.dir/tui_widget_label.c.o CMakeFiles/tui.dir/tui_widget_progress.c.o CMakeFiles/tui.dir/tui_widget_radiobox.c.o CMakeFiles/tui.dir/tui_widget_spin_edit.c.o CMakeFiles/tui.dir/tui_widget_string_list.c.o CMakeFiles/tui.dir/tui_widget_tabhdr.c.o CMakeFiles/tui.dir/linux/systui.c.o +/usr/bin/ranlib ../../../../ilib/libtui.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 26%] Building C object tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/rd-filter-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/rd-filter-redact/CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -MF CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o.d -o CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3 helicos-load +[ 26%] Built target tui make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/depend +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/makeinputs.dir/link.d CMakeFiles/makeinputs.dir/makeinputs.cpp.o CMakeFiles/makeinputs.dir/testsource.cpp.o -o ../../../../test-bin/makeinputs ../../../../ilib/libgeneral-writer.a -lncbi-vdb make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 76%] Linking CXX executable ../../../../../test-bin/bio-end-makeinputs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/DependInfo.cmake "--color=" -[ 77%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/bio-end-makeinputs.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -MF CMakeFiles/copycat.dir/kff/ffkey.c.o.d -o CMakeFiles/copycat.dir/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c -[ 77%] Linking C executable ../../../bin/md5cp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/md5cp && /usr/bin/cmake -E cmake_link_script CMakeFiles/md5cp.dir/link.txt --verbose=1 +[ 26%] Built target makeinputs make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build.make tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/build -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srf-load.dir/link.d "CMakeFiles/srf-load.dir/pstring.c.o" "CMakeFiles/srf-load.dir/common-xml.c.o" "CMakeFiles/srf-load.dir/experiment-xml.c.o" "CMakeFiles/srf-load.dir/run-xml.c.o" "CMakeFiles/srf-load.dir/loader-file.c.o" "CMakeFiles/srf-load.dir/loader-fmt.c.o" "CMakeFiles/srf-load.dir/sra-writer.c.o" "CMakeFiles/srf-load.dir/loader.c.o" "CMakeFiles/srf-load.dir/srf.c.o" "CMakeFiles/srf-load.dir/srf-fmt.c.o" "CMakeFiles/srf-load.dir/writer-illumina.c.o" "CMakeFiles/srf-load.dir/ztr-illumina.c.o" "CMakeFiles/srf-load.dir/srf-illumina.c.o" "CMakeFiles/srf-load.dir/writer-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-huffman.c.o" "CMakeFiles/srf-load.dir/srf-absolid.c.o" -o ../../../bin/srf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so -[ 77%] Linking C executable ../../../bin/meta-copy -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srf-load.3.0.9 -make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-copy.dir/link.txt --verbose=1 +[ 26%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadIteratorItf.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srf-load srf-load.3.0.9 -[ 77%] Built target helicos-load -make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3.0.9 srf-load.3 -[ 77%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort-cg.dir/link.d "CMakeFiles/sra-sort-cg.dir/caps.c.o" "CMakeFiles/sra-sort-cg.dir/mem.c.o" "CMakeFiles/sra-sort-cg.dir/membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort-cg.dir/except.c.o" "CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o" "CMakeFiles/sra-sort-cg.dir/map-file.c.o" "CMakeFiles/sra-sort-cg.dir/col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/row-set.c.o" "CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/meta-pair.c.o" "CMakeFiles/sra-sort-cg.dir/dir-pair.c.o" "CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o" "CMakeFiles/sra-sort-cg.dir/db-pair.c.o" "CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o" "CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort-cg.dir/buff-writer.c.o" "CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort-cg.dir/run.c.o" "CMakeFiles/sra-sort-cg.dir/sra-sort.c.o" "CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o" "CMakeFiles/sra-sort-cg.dir/csra-pair.c.o" -o ../../../bin/sra-sort-cg /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -MF CMakeFiles/copycat.dir/kff/ffmagic.c.o.d -o CMakeFiles/copycat.dir/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact/CMakeFiles/check-redact.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3 srf-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort-cg.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort-cg sra-sort-cg.3.0.9 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3.0.9 sra-sort-cg.3 /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-cmp.dir/link.d "CMakeFiles/meta-cmp.dir/meta-cmp.c.o" -o ../../../bin/meta-cmp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -[ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-cmp.3.0.9 +[ 26%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/context.c.o -MF CMakeFiles/vdb-copy.dir/context.c.o.d -o CMakeFiles/vdb-copy.dir/context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/context.c -make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3 sra-sort-cg +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-cmp meta-cmp.3.0.9 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3DefaultRowEst': +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3.0.9 meta-cmp.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build.make tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3 meta-cmp +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-cmp.3.0.9 +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-copy.dir/link.d "CMakeFiles/meta-copy.dir/meta-copy.c.o" -o ../../../bin/meta-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-copy.3.0.9 +[ 26%] Linking C executable ../../../bin/test-read-write-cursor +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-read-write-cursor.dir/link.txt --verbose=1 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c: In function 'enter_date_name_vers': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c:755:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 755 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); + | ^~~~~~~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-copy meta-copy.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3.0.9 meta-copy.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-copy.3 meta-copy +[ 26%] Built target meta-cmp +make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] +102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); + | ^~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact/CMakeFiles/check-redact.dir/DependInfo.cmake "--color=" +[ 26%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -MF CMakeFiles/vdb-diff.dir/namelist_tools.c.o.d -o CMakeFiles/vdb-diff.dir/namelist_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/namelist_tools.c +[ 26%] Linking CXX executable ../../../../../test-bin/idx-text-checklookup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-checklookup.dir/link.txt --verbose=1 +[ 26%] Built target meta-copy +make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/depend +[ 26%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o +[ 26%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/cctar.c.o -MF CMakeFiles/copycat.dir/cctar.c.o.d -o CMakeFiles/copycat.dir/cctar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/cctar.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceItf.cpp +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/DependInfo.cmake "--color=" make -f tools/internal/check-redact/CMakeFiles/check-redact.dir/build.make tools/internal/check-redact/CMakeFiles/check-redact.dir/build +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:11540: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102377:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' +102377 | if( pIdx->pPartIdxWhere!=0 ) a[0] -= 10; assert( 10==sqlite3LogEst(2) ); + | ^~~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-cmp meta-cmp.3.0.9 -[ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -MF CMakeFiles/vdb-copy.dir/helper.c.o.d -o CMakeFiles/vdb-copy.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/helper.c +[ 26%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/SRA_ReferenceSequence.c +[ 26%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsra.c.o -MF CMakeFiles/copycat.dir/ccsra.c.o.d -o CMakeFiles/copycat.dir/ccsra.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsra.c +[ 26%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/tbl-pair.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 77%] Built target srf-load make -f tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build.make tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3.0.9 meta-cmp.3 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 77%] Built target sra-sort-cg -[ 77%] Building C object tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o +[ 27%] Building C object tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/check-redact\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/check-redact/CMakeFiles/check-redact.dir/check-redact.c.o -MF CMakeFiles/check-redact.dir/check-redact.c.o.d -o CMakeFiles/check-redact.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/check-redact/check-redact.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-cmp.3 meta-cmp +[ 27%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -MF CMakeFiles/ngs-disp.dir/PackageItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/PackageItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/PackageItf.cpp +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:3: warning: this 'if' clause does not guard... [-Wmisleading-indentation] +102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); + | ^~ +[ 27%] Building C object tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -MF CMakeFiles/crc32sum.dir/crc32sum.c.o.d -o CMakeFiles/crc32sum.dir/crc32sum.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum/crc32sum.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-read-write-cursor.dir/link.d "CMakeFiles/test-read-write-cursor.dir/test-read-write-cursor.c.o" -o ../../../bin/test-read-write-cursor /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-read-write-cursor.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-read-write-cursor test-read-write-cursor.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3.0.9 test-read-write-cursor.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3 test-read-write-cursor +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:102378:45: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the 'if' +102378 | if( a[0]<33 ) a[0] = 33; assert( 33==sqlite3LogEst(10) ); + | ^~~~~~ +[ 27%] Built target test-read-write-cursor make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download/CMakeFiles/test-download.dir/DependInfo.cmake "--color=" -[ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 77%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c: In function 'enter_date_name_vers': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/rd-filter-redact/read-filter-redact.c:755:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] - 755 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); - | ^~~~~~~~ +make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 27%] Building C object tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -MF CMakeFiles/test-download.dir/test-download.c.o.d -o CMakeFiles/test-download.dir/test-download.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download/test-download.c +[ 27%] Linking C executable ../../../bin/crc32sum +[ 27%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/FragmentIterator.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cmake -E cmake_link_script CMakeFiles/crc32sum.dir/link.txt --verbose=1 +[ 27%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/helper.c.o -MF CMakeFiles/vdb-copy.dir/helper.c.o.d -o CMakeFiles/vdb-copy.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/helper.c +[ 27%] Linking C executable ../../../bin/meta-repair +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-repair.dir/link.txt --verbose=1 +[ 27%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c +[ 27%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ReadItf.cpp +[ 27%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/coldefs.c.o -MF CMakeFiles/vdb-diff.dir/coldefs.c.o.d -o CMakeFiles/vdb-diff.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/coldefs.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o -MF CMakeFiles/vdb-copy.dir/coldefs.c.o.d -o CMakeFiles/vdb-copy.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/coldefs.c -[ 77%] Building C object tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -[ 77%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -MF CMakeFiles/vdb-copy.dir/get_platform.c.o.d -o CMakeFiles/vdb-copy.dir/get_platform.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/get_platform.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/crc32sum/CMakeFiles/crc32sum.dir/crc32sum.c.o -MF CMakeFiles/crc32sum.dir/crc32sum.c.o.d -o CMakeFiles/crc32sum.dir/crc32sum.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/crc32sum/crc32sum.c -[ 77%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/namelist_tools.c.o -MF CMakeFiles/vdb-diff.dir/namelist_tools.c.o.d -o CMakeFiles/vdb-diff.dir/namelist_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/namelist_tools.c -[ 77%] Built target meta-cmp -make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/depend +[ 27%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccsubchunk.c.o -MF CMakeFiles/copycat.dir/ccsubchunk.c.o.d -o CMakeFiles/copycat.dir/ccsubchunk.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccsubchunk.c +[ 27%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_FragmentItf.cpp +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/crc32sum.dir/link.d CMakeFiles/crc32sum.dir/crc32sum.c.o -o ../../../bin/crc32sum /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f crc32sum.3.0.9 +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-repair.dir/link.d "CMakeFiles/meta-repair.dir/meta-repair.c.o" -o ../../../bin/meta-repair /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-repair.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv crc32sum crc32sum.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-repair meta-repair.3.0.9 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-checklookup.dir/link.d "CMakeFiles/idx-text-checklookup.dir/idx-text/checklookup.cpp.o" -o ../../../../../test-bin/idx-text-checklookup /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/test-download/CMakeFiles/test-download.dir/build.make tools/test-tools/test-download/CMakeFiles/test-download.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3.0.9 crc32sum.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3.0.9 meta-repair.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3 crc32sum +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3 meta-repair +[ 27%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o -MF CMakeFiles/ngs.dir/NGS_Statistics.c.o.d -o CMakeFiles/ngs.dir/NGS_Statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Statistics.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 27%] Built target idx-text-checklookup +make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/depend +[ 27%] Built target crc32sum +[ 27%] Built target meta-repair make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/md5cp.dir/link.d CMakeFiles/md5cp.dir/md5cp.c.o -o ../../../bin/md5cp /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f md5cp.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff-context.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv md5cp md5cp.3.0.9 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-copy.dir/link.d "CMakeFiles/meta-copy.dir/meta-copy.c.o" -o ../../../bin/meta-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-copy.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/DependInfo.cmake "--color=" +[ 28%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o +[ 28%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX 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tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/poslen-col-pair.c.o -MF 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tools/external/sra-info/CMakeFiles/sra-info.dir/formatter.cpp.o -MF CMakeFiles/sra-info.dir/formatter.cpp.o.d -o CMakeFiles/sra-info.dir/formatter.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info/formatter.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build.make tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3.0.9 md5cp.3 +[ 29%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-copy meta-copy.3.0.9 -[ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s md5cp.3 md5cp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -MF CMakeFiles/vdb-diff.dir/cmn.c.o.d -o 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff-context.c +[ 29%] Linking C executable ../../../bin/read-filter-redact +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/read-filter-redact.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building C object tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -[ 78%] Building C object tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/test-download/CMakeFiles/test-download.dir/test-download.c.o -MF CMakeFiles/test-download.dir/test-download.c.o.d -o CMakeFiles/test-download.dir/test-download.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/test-download/test-download.c +make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 29%] Building C object tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/kdb-index/CMakeFiles/kdb-index.dir/kdb-index.c.o -MF CMakeFiles/kdb-index.dir/kdb-index.c.o.d -o CMakeFiles/kdb-index.dir/kdb-index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/kdb-index/kdb-index.c -[ 78%] Built target meta-copy -[ 78%] Built target md5cp -make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/depend -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bio-end-makeinputs.dir/link.d "CMakeFiles/bio-end-makeinputs.dir/bio-end/makeinputs.cpp.o" -o ../../../../../test-bin/bio-end-makeinputs ../../../../../ilib/libgeneral-writer.a +[ 29%] Building C object tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -MF CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o.d -o CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct/pacbio-correct.c +[ 29%] Linking C executable ../../../bin/check-redact +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-redact.dir/link.txt --verbose=1 +[ 29%] Linking C executable ../../../bin/test-download +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-download.dir/link.txt --verbose=1 +[ 29%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/ccfile.c.o -MF CMakeFiles/copycat.dir/ccfile.c.o.d -o CMakeFiles/copycat.dir/ccfile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/ccfile.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/read-filter-redact.dir/link.d "CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o" -o ../../../bin/read-filter-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f read-filter-redact.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv read-filter-redact read-filter-redact.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3.0.9 read-filter-redact.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3 read-filter-redact +[ 30%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -MF CMakeFiles/vdb-diff.dir/row_by_row.c.o.d -o CMakeFiles/vdb-diff.dir/row_by_row.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/row_by_row.c -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-loadxml.dir/link.d "CMakeFiles/pacbio-loadxml.dir/pstring.c.o" "CMakeFiles/pacbio-loadxml.dir/common-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/run-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-file.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o" "CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o" "CMakeFiles/pacbio-loadxml.dir/loader.c.o" "CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o" -o ../../../bin/pacbio-loadxml ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-loadxml.3.0.9 -[ 78%] Linking C executable ../../../bin/pacbio-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-load.dir/link.txt --verbose=1 -[ 78%] Built target bio-end-makeinputs -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-loadxml pacbio-loadxml.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -MF CMakeFiles/ngs.dir/NGS_ReadCollection.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReadCollection.c +[ 30%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/cmn.c.o -MF CMakeFiles/vdb-diff.dir/cmn.c.o.d -o CMakeFiles/vdb-diff.dir/cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/cmn.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-redact.dir/link.d "CMakeFiles/check-redact.dir/check-redact.c.o" -o ../../../bin/check-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-redact.3.0.9 +[ 30%] Linking C executable ../../../bin/pacbio-correct +[ 30%] Built target read-filter-redact make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/depend -[ 78%] Linking C executable ../../../bin/test-read-write-cursor +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-correct.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-redact check-redact.3.0.9 +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-download.dir/link.d "CMakeFiles/test-download.dir/test-download.c.o" -o ../../../bin/test-download /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3.0.9 pacbio-loadxml.3 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build.make tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-read-write-cursor.dir/link.txt --verbose=1 -[ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3 pacbio-loadxml -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -MF CMakeFiles/vdb-diff.dir/col_by_col.c.o.d -o CMakeFiles/vdb-diff.dir/col_by_col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/col_by_col.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ccextract.dir/link.d CMakeFiles/ccextract.dir/ccextract.c.o -o ../../../bin/ccextract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libxml2.so -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ccextract.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-download.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-download test-download.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3.0.9 check-redact.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3.0.9 test-download.3 +[ 31%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3 check-redact +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/db-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/db-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/db-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/db-pair.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3 test-download make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ccextract ccextract.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3.0.9 ccextract.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ccextract.3 ccextract make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -[ 78%] Building C object tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o +make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target check-redact +[ 31%] Linking C executable ../../../bin/kdb-index +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdb-index.dir/link.txt --verbose=1 make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/pacbio-correct/CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -MF CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o.d -o CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pacbio-correct/pacbio-correct.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build.make tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/build -[ 78%] Built target ccextract +[ 31%] Building C object tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -MF CMakeFiles/schema-replace.dir/schema-replace.c.o.d -o CMakeFiles/schema-replace.dir/schema-replace.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace/schema-replace.c +[ 31%] Built target test-download make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/DependInfo.cmake "--color=" -[ 78%] Linking CXX executable ../../../../../test-bin/idx-text-makeinputs -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/vschema && /usr/bin/cmake -E cmake_link_script CMakeFiles/idx-text-makeinputs.dir/link.txt --verbose=1 +[ 31%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/StringItf.cpp.o -MF CMakeFiles/ngs-disp.dir/StringItf.cpp.o.d -o CMakeFiles/ngs-disp.dir/StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/StringItf.cpp make -f tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build.make tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building C object tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/schema-replace/CMakeFiles/schema-replace.dir/schema-replace.c.o -MF CMakeFiles/schema-replace.dir/schema-replace.c.o.d -o CMakeFiles/schema-replace.dir/schema-replace.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/schema-replace/schema-replace.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build.make tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 78%] Building C object tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o +[ 31%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/fileformat.c.o -MF CMakeFiles/copycat.dir/kff/fileformat.c.o.d -o CMakeFiles/copycat.dir/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c +[ 31%] Building C object tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sortreadtest/CMakeFiles/sortreadtest.dir/sortreadtest.c.o -MF CMakeFiles/sortreadtest.dir/sortreadtest.c.o.d -o CMakeFiles/sortreadtest.dir/sortreadtest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sortreadtest/sortreadtest.c -[ 78%] Building C object tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o +[ 31%] Building C object tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/rowwritetest/CMakeFiles/rowwritetest.dir/rowwritetest.c.o -MF CMakeFiles/rowwritetest.dir/rowwritetest.c.o.d -o CMakeFiles/rowwritetest.dir/rowwritetest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/rowwritetest/rowwritetest.c -[ 78%] Built target pacbio-loadxml +[ 31%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Fragment.cpp +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-correct.dir/link.d "CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o" -o ../../../bin/pacbio-correct /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-correct.3.0.9 +[ 31%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-correct pacbio-correct.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Package.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3.0.9 pacbio-correct.3 +[ 31%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3 pacbio-correct +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 31%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/row_by_row.c.o -MF CMakeFiles/vdb-diff.dir/row_by_row.c.o.d -o CMakeFiles/vdb-diff.dir/row_by_row.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/row_by_row.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdb-index.dir/link.d "CMakeFiles/kdb-index.dir/kdb-index.c.o" -o ../../../bin/kdb-index /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdb-index.3.0.9 +[ 31%] Built target pacbio-correct +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdb-index kdb-index.3.0.9 +[ 31%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/coldefs.c.o -MF CMakeFiles/vdb-copy.dir/coldefs.c.o.d -o CMakeFiles/vdb-copy.dir/coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/coldefs.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util/CMakeFiles/samview-util.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 31%] Built target kdb-index make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-read-write-cursor.3.0.9 -[ 78%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld 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-fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o -MF CMakeFiles/vdb-copy.dir/redactval.c.o.d -o CMakeFiles/vdb-copy.dir/redactval.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/redactval.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3.0.9 test-read-write-cursor.3 -make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/depend +[ 32%] Building C object tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -MF CMakeFiles/samview-util.dir/samview.c.o.d -o CMakeFiles/samview-util.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util/samview.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/DependInfo.cmake "--color=" -[ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-read-write-cursor.3 test-read-write-cursor -[ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -MF CMakeFiles/vdb-copy.dir/type_matcher.c.o.d -o CMakeFiles/vdb-copy.dir/type_matcher.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/type_matcher.c +[ 32%] Building C object tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -MF CMakeFiles/testld.dir/testld.c.o.d -o CMakeFiles/testld.dir/testld.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld/testld.c +[ 32%] Linking C executable ../../../bin/schema-replace +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cmake -E cmake_link_script CMakeFiles/schema-replace.dir/link.txt --verbose=1 +[ 33%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceIteratorItf.cpp +[ 33%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o +[ 33%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffext.c.o -MF CMakeFiles/copycat.dir/kff/ffext.c.o.d -o CMakeFiles/copycat.dir/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_String.cpp +[ 34%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_Refcount.cpp +[ 34%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/col_by_col.c.o -MF CMakeFiles/vdb-diff.dir/col_by_col.c.o.d -o CMakeFiles/vdb-diff.dir/col_by_col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/col_by_col.c +[ 34%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -MF CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o.d -o CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/glob-poslen.c +[ 34%] Linking C executable ../../../bin/sortreadtest +[ 34%] Linking C executable ../../../bin/samview-util +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview-util.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/sortreadtest.dir/link.txt --verbose=1 +[ 35%] Linking C executable ../../../bin/rowwritetest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cmake -E cmake_link_script CMakeFiles/rowwritetest.dir/link.txt --verbose=1 +[ 35%] Linking C executable ../../../bin/testld +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cmake -E cmake_link_script CMakeFiles/testld.dir/link.txt --verbose=1 +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/schema-replace.dir/link.d "CMakeFiles/schema-replace.dir/schema-replace.c.o" -o ../../../bin/schema-replace /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f schema-replace.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv schema-replace schema-replace.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3.0.9 schema-replace.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3 schema-replace make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build.make tools/test-tools/samview-util/CMakeFiles/samview-util.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o -MF CMakeFiles/vdb-copy.dir/config_values.c.o.d -o CMakeFiles/vdb-copy.dir/config_values.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/config_values.c +[ 35%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/Refcount.cpp.o -MF CMakeFiles/ngs-disp.dir/Refcount.cpp.o.d -o CMakeFiles/ngs-disp.dir/Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/Refcount.cpp +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rowwritetest.dir/link.d CMakeFiles/rowwritetest.dir/rowwritetest.c.o -o ../../../bin/rowwritetest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rowwritetest.3.0.9 +[ 35%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o +[ 35%] Built target schema-replace +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -MF CMakeFiles/ngs.dir/NGS_PileupEvent.c.o.d -o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_PileupEvent.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rowwritetest rowwritetest.3.0.9 +make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3.0.9 rowwritetest.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3 rowwritetest +[ 35%] Building C object tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-diff\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-diff/CMakeFiles/vdb-diff.dir/vdb-diff.c.o -MF CMakeFiles/vdb-diff.dir/vdb-diff.c.o.d -o CMakeFiles/vdb-diff.dir/vdb-diff.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-diff/vdb-diff.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/testld/CMakeFiles/testld.dir/build.make tools/test-tools/testld/CMakeFiles/testld.dir/build -[ 79%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -MF CMakeFiles/vdb-copy.dir/vdb-copy.c.o.d -o CMakeFiles/vdb-copy.dir/vdb-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview-util.dir/link.d "CMakeFiles/samview-util.dir/samview.c.o" -o ../../../bin/samview-util /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview-util.3.0.9 +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sortreadtest.dir/link.d CMakeFiles/sortreadtest.dir/sortreadtest.c.o -o ../../../bin/sortreadtest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testld.dir/link.d CMakeFiles/testld.dir/testld.c.o -o ../../../bin/testld /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 79%] Linking C executable ../../../bin/cg-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sortreadtest.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f testld.3.0.9 +[ 35%] Built target rowwritetest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview-util samview-util.3.0.9 make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/cg-load.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sortreadtest sortreadtest.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3.0.9 samview-util.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv testld testld.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3 samview-util make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3.0.9 testld.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build.make tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3 testld +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 36%] Built target samview-util +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 36%] Building C object tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o +make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o -MF CMakeFiles/txt2kdb.dir/txt2kdb.c.o.d -o CMakeFiles/txt2kdb.dir/txt2kdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb/txt2kdb.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3.0.9 sortreadtest.3 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build.make tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/depend -[ 80%] Building C object tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -[ 80%] Built target test-read-write-cursor +[ 36%] Built target testld make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 80%] Building C object tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/samview-util/CMakeFiles/samview-util.dir/samview.c.o -MF CMakeFiles/samview-util.dir/samview.c.o.d -o CMakeFiles/samview-util.dir/samview.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/samview-util/samview.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/testld/CMakeFiles/testld.dir/testld.c.o -MF CMakeFiles/testld.dir/testld.c.o.d -o CMakeFiles/testld.dir/testld.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/testld/testld.c +make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3 sortreadtest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 36%] Building CXX object tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o -MF CMakeFiles/sam-factory.dir/sam-factory.cpp.o.d -o CMakeFiles/sam-factory.dir/sam-factory.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-factory/sam-factory.cpp +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build.make tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build.make tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 36%] Built target sortreadtest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb/CMakeFiles/test-vdb.dir/DependInfo.cmake "--color=" -make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/DependInfo.cmake "--color=" +[ 36%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/buff-writer.c.o -MF CMakeFiles/sra-sort.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c +[ 36%] Building CXX object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o +[ 36%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/main.cpp.o -MF CMakeFiles/qa-stats.dir/main.cpp.o.d -o CMakeFiles/qa-stats.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/main.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o -MF CMakeFiles/sam-analyze.dir/main.cpp.o.d -o CMakeFiles/sam-analyze.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/main.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build.make tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/build +make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 81%] Building C object tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o +[ 36%] Building CXX object test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o -MF CMakeFiles/test-vdb.dir/test-vdb.cpp.o.d -o CMakeFiles/test-vdb.dir/test-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb/test-vdb.cpp +[ 37%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffkey.c.o -MF CMakeFiles/copycat.dir/kff/ffkey.c.o.d -o CMakeFiles/copycat.dir/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c +[ 37%] Building CXX object ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-jni -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/java/CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -MF CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o.d -o CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/java/jni_ErrorMsg.cpp +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/poslen-col-pair.c +[ 37%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/Statistics.cpp +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -MF CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/ref-alignid-col.c +[ 37%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/get_platform.c.o -MF CMakeFiles/vdb-copy.dir/get_platform.c.o.d -o CMakeFiles/vdb-copy.dir/get_platform.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/get_platform.c +[ 37%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_ReferenceSequenceItf.cpp +[ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o -MF CMakeFiles/ngs.dir/NGS_Pileup.c.o.d -o CMakeFiles/ngs.dir/NGS_Pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Pileup.c +[ 37%] Linking C executable ../../../bin/txt2kdb +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/txt2kdb.dir/link.txt --verbose=1 +[ 37%] Linking CXX static library ../../../../ilib/libngs-bind-java.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -P CMakeFiles/ngs-bind-java.dir/cmake_clean_target.cmake +[ 37%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/VTable.cpp.o -MF CMakeFiles/ngs-disp.dir/VTable.cpp.o.d -o CMakeFiles/ngs-disp.dir/VTable.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/VTable.cpp +[ 37%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/copy_meta.c.o -MF CMakeFiles/vdb-copy.dir/copy_meta.c.o.d -o CMakeFiles/vdb-copy.dir/copy_meta.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/java && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-java.dir/link.txt --verbose=1 +[ 37%] Linking C executable ../../../bin/vdb-diff +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-diff.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c: In function 'enter_date_name_vers': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/copy_meta.c:301:59: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 301 | rc = KMDataNodeWriteAttr ( node, "build", __DATE__ ); | ^~~~~~~~ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/txt2kdb/CMakeFiles/txt2kdb.dir/txt2kdb.c.o -MF CMakeFiles/txt2kdb.dir/txt2kdb.c.o.d -o CMakeFiles/txt2kdb.dir/txt2kdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/txt2kdb/txt2kdb.c -[ 81%] Linking C executable ../../../bin/crc32sum +/usr/bin/ar qc ../../../../ilib/libngs-bind-java.a "CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "CMakeFiles/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" +/usr/bin/ranlib ../../../../ilib/libngs-bind-java.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/vdb/CMakeFiles/test-vdb.dir/build.make test/vdb/CMakeFiles/test-vdb.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/crc32sum && /usr/bin/cmake -E cmake_link_script CMakeFiles/crc32sum.dir/link.txt --verbose=1 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 81%] Building CXX object tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/sam-factory/CMakeFiles/sam-factory.dir/sam-factory.cpp.o -MF CMakeFiles/sam-factory.dir/sam-factory.cpp.o.d -o CMakeFiles/sam-factory.dir/sam-factory.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-factory/sam-factory.cpp -make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/depend -[ 81%] Building CXX object test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/vdb/CMakeFiles/test-vdb.dir/test-vdb.cpp.o -MF CMakeFiles/test-vdb.dir/test-vdb.cpp.o.d -o CMakeFiles/test-vdb.dir/test-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/vdb/test-vdb.cpp -[ 81%] Linking C executable ../../../bin/copycat +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -MF CMakeFiles/sra-sort-cg.dir/buff-writer.c.o.d -o CMakeFiles/sra-sort-cg.dir/buff-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/buff-writer.c +[ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o -MF CMakeFiles/ngs.dir/NGS_ReadGroup.c.o.d -o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReadGroup.c +[ 37%] Built target ngs-bind-java +make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/depend +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/txt2kdb.dir/link.d CMakeFiles/txt2kdb.dir/txt2kdb.c.o -o ../../../bin/txt2kdb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f txt2kdb.3.0.9 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/align-info/CMakeFiles/Build-align-info.dir/DependInfo.cmake "--color=" -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/depend -[ 81%] Linking C executable ../../../bin/check-redact +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv txt2kdb txt2kdb.3.0.9 +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3.0.9 txt2kdb.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3 txt2kdb +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-diff.dir/link.d "CMakeFiles/vdb-diff.dir/namelist_tools.c.o" "CMakeFiles/vdb-diff.dir/coldefs.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o" "CMakeFiles/vdb-diff.dir/cmn.c.o" "CMakeFiles/vdb-diff.dir/row_by_row.c.o" "CMakeFiles/vdb-diff.dir/col_by_col.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff.c.o" -o ../../../bin/vdb-diff /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build.make tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/check-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-redact.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/copycat.dir/link.txt --verbose=1 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 81%] Linking C executable ../../../bin/pacbio-correct +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-diff.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-diff vdb-diff.3.0.9 make -f test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build.make test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pacbio-correct && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-correct.dir/link.txt --verbose=1 make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3.0.9 vdb-diff.3 +[ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o -MF CMakeFiles/ngs.dir/NGS_Alignment.c.o.d -o CMakeFiles/ngs.dir/NGS_Alignment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Alignment.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3 vdb-diff +[ 37%] Built target txt2kdb +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/idx-text-makeinputs.dir/link.d "CMakeFiles/idx-text-makeinputs.dir/idx-text/makeinputs.cpp.o" -o ../../../../../test-bin/idx-text-makeinputs ../../../../../ilib/libgeneral-writer.a -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/depend -make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/build -[ 81%] Linking C executable ../../../bin/kdb-index make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/align-info/CMakeFiles/Build-align-info.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/DependInfo.cmake "--color=" +[ 37%] Building Java objects for test-ngs-java.jar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS +[ 37%] Built target vdb-diff +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/kdb-index && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdb-index.dir/link.txt --verbose=1 -[ 81%] Building CXX object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/main.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && 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&& /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/make-read-filter && /usr/bin/cmake -E cmake_link_script CMakeFiles/make-read-filter.dir/link.txt --verbose=1 +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/build +[ 37%] Building C object tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/copycat/CMakeFiles/copycat.dir/kff/ffmagic.c.o -MF CMakeFiles/copycat.dir/kff/ffmagic.c.o.d -o CMakeFiles/copycat.dir/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 81%] Linking C executable ../../../bin/sortreadtest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sortreadtest && /usr/bin/cmake -E cmake_link_script CMakeFiles/sortreadtest.dir/link.txt --verbose=1 -[ 81%] Building Java objects for test-ngs-java.jar -[ 81%] Built target Build-align-info -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS -[ 81%] Built target idx-text-makeinputs -[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp -[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -MF CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o.d -o CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-filepath.cpp -[ 81%] Linking C executable ../../../bin/samview-util -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/samview-util && /usr/bin/cmake -E cmake_link_script CMakeFiles/samview-util.dir/link.txt --verbose=1 +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/build cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar:/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java/junit-4.11.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_sources -[ 81%] Building C object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o -MF CMakeFiles/sam-analyze.dir/sqlite3.c.o.d -o CMakeFiles/sam-analyze.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/sqlite3.c -[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -[ 81%] Linking C executable ../../../bin/vdb-diff -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp -[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-diff && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-diff.dir/link.txt --verbose=1 -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/depend -[ 81%] Linking C executable ../../../bin/schema-replace -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/schema-replace && /usr/bin/cmake -E cmake_link_script CMakeFiles/schema-replace.dir/link.txt --verbose=1 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/crc32sum.dir/link.d CMakeFiles/crc32sum.dir/crc32sum.c.o -o ../../../bin/crc32sum /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cg-load.dir/link.d "CMakeFiles/cg-load.dir/cg-load.c.o" "CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/factory-mappings.c.o" "CMakeFiles/cg-load.dir/factory-reads.c.o" "CMakeFiles/cg-load.dir/factory-tag-lfr.c.o" "CMakeFiles/cg-load.dir/f1_3.c.o" "CMakeFiles/cg-load.dir/f1_5.c.o" "CMakeFiles/cg-load.dir/f1_7.c.o" "CMakeFiles/cg-load.dir/f2_0.c.o" "CMakeFiles/cg-load.dir/f2_2.c.o" "CMakeFiles/cg-load.dir/f2_4.c.o" "CMakeFiles/cg-load.dir/f2_5.c.o" "CMakeFiles/cg-load.dir/file.c.o" "CMakeFiles/cg-load.dir/file-version-factory.c.o" "CMakeFiles/cg-load.dir/formats.c.o" "CMakeFiles/cg-load.dir/writer-algn.c.o" "CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/writer-seq.c.o" -o ../../../bin/cg-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f crc32sum.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cg-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cg-load cg-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv crc32sum crc32sum.3.0.9 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-redact.dir/link.d "CMakeFiles/check-redact.dir/check-redact.c.o" -o ../../../bin/check-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3.0.9 cg-load.3 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-load.dir/link.d "CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o" "CMakeFiles/pacbio-load.dir/pl-context.c.o" "CMakeFiles/pacbio-load.dir/pl-tools.c.o" "CMakeFiles/pacbio-load.dir/pl-zmw.c.o" "CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o" "CMakeFiles/pacbio-load.dir/pl-sequence.c.o" "CMakeFiles/pacbio-load.dir/pl-consensus.c.o" "CMakeFiles/pacbio-load.dir/pl-passes.c.o" "CMakeFiles/pacbio-load.dir/pl-metrics.c.o" "CMakeFiles/pacbio-load.dir/pl-regions.c.o" "CMakeFiles/pacbio-load.dir/pl-progress.c.o" "CMakeFiles/pacbio-load.dir/pacbio-load.c.o" -o ../../../bin/pacbio-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libpthread.a /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.a -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3.0.9 crc32sum.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3 cg-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-load pacbio-load.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3.0.9 pacbio-load.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-redact.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3 pacbio-load -[ 81%] Linking C executable ../../../bin/read-filter-redact -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s crc32sum.3 crc32sum -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/rd-filter-redact && /usr/bin/cmake -E cmake_link_script CMakeFiles/read-filter-redact.dir/link.txt --verbose=1 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-redact check-redact.3.0.9 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/make-read-filter.dir/link.d "CMakeFiles/make-read-filter.dir/make-read-filter.c.o" -o ../../../bin/make-read-filter /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f make-read-filter.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3.0.9 check-redact.3 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-correct.dir/link.d "CMakeFiles/pacbio-correct.dir/pacbio-correct.c.o" -o ../../../bin/pacbio-correct /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-correct.3.0.9 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/kdb-index.dir/link.d "CMakeFiles/kdb-index.dir/kdb-index.c.o" -o ../../../bin/kdb-index /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f kdb-index.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv make-read-filter make-read-filter.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-correct pacbio-correct.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-tool-args.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-redact.3 check-redact -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdb-index kdb-index.3.0.9 +[ 37%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o +[ 37%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o +[ 37%] Building CXX object ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -MF CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o.d -o CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/c++/StringRef.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/type_matcher.c.o -MF CMakeFiles/vdb-copy.dir/type_matcher.c.o.d -o CMakeFiles/vdb-copy.dir/type_matcher.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/type_matcher.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -MF CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-build-version.cpp +[ 37%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o -MF CMakeFiles/ngs.dir/NGS_Reference.c.o.d -o CMakeFiles/ngs.dir/NGS_Reference.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Reference.c +[ 37%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -MF CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o.d -o CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-filepath.cpp +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -MF CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o.d -o CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/id-mapper-col.c +[ 37%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StatisticsItf.cpp +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c +[ 37%] Linking C executable ../../../bin/copycat +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/copycat.dir/link.txt --verbose=1 +[ 37%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ErrBlock.cpp +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -MF CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o.d -o CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/capture-first-half-aligned.c +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/run.c.o -MF CMakeFiles/sra-sort-cg.dir/run.c.o.d -o CMakeFiles/sra-sort-cg.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c +[ 37%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/run.c.o -MF CMakeFiles/sra-sort.dir/run.c.o.d -o CMakeFiles/sra-sort.dir/run.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/run.c +[ 38%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o /usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/copycat.dir/link.d CMakeFiles/copycat.dir/copycat.c.o CMakeFiles/copycat.dir/ccfileformat.c.o CMakeFiles/copycat.dir/cccat.c.o CMakeFiles/copycat.dir/cctree.c.o "CMakeFiles/copycat.dir/cctree-dump.c.o" CMakeFiles/copycat.dir/cctar.c.o CMakeFiles/copycat.dir/ccsra.c.o CMakeFiles/copycat.dir/ccsubchunk.c.o CMakeFiles/copycat.dir/ccfile.c.o CMakeFiles/copycat.dir/kff/fileformat.c.o CMakeFiles/copycat.dir/kff/ffext.c.o CMakeFiles/copycat.dir/kff/ffkey.c.o CMakeFiles/copycat.dir/kff/ffmagic.c.o -o ../../../bin/copycat /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libmagic.so -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3.0.9 kdb-index.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f copycat.3.0.9 -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sortreadtest.dir/link.d CMakeFiles/sortreadtest.dir/sortreadtest.c.o -o ../../../bin/sortreadtest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -[ 81%] Linking C executable ../../../bin/testld -make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sortreadtest.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/redactval.c.o -MF CMakeFiles/vdb-copy.dir/redactval.c.o.d -o CMakeFiles/vdb-copy.dir/redactval.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/redactval.c cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv copycat copycat.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/testld && /usr/bin/cmake -E cmake_link_script CMakeFiles/testld.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdb-index.3 kdb-index -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sortreadtest sortreadtest.3.0.9 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3.0.9 copycat.3 -[ 81%] Built target cg-load -[ 81%] Built target crc32sum -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3.0.9 sortreadtest.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s copycat.3 copycat -make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sortreadtest.3 sortreadtest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3.0.9 make-read-filter.3 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3.0.9 pacbio-correct.3 +[ 38%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -MF CMakeFiles/sra-sort-cg.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort-cg.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c +[ 38%] Built target copycat +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/DependInfo.cmake "--color=" +[ 38%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_Refcount.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/DependInfo.cmake "--color=" -make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s make-read-filter.3 make-read-filter -[ 81%] Built target pacbio-load -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-correct.3 pacbio-correct +[ 39%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -MF CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-command-line.cpp +[ 39%] Linking CXX static library ../../../../ilib/libngs-bind-c++.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -P CMakeFiles/ngs-bind-c++.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-c++.dir/link.txt --verbose=1 +[ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c +[ 40%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/config_values.c.o -MF CMakeFiles/vdb-copy.dir/config_values.c.o.d -o CMakeFiles/vdb-copy.dir/config_values.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/config_values.c +[ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceSequence.c +[ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/sra-sort.c.o -MF CMakeFiles/sra-sort.dir/sra-sort.c.o.d -o CMakeFiles/sra-sort.dir/sra-sort.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/sra-sort.c +[ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o +/usr/bin/ar qc ../../../../ilib/libngs-bind-c++.a "CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" +/usr/bin/ranlib ../../../../ilib/libngs-bind-c++.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o -MF CMakeFiles/ngs.dir/NGS_Read.c.o.d -o CMakeFiles/ngs.dir/NGS_Read.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Read.c +[ 40%] Built target ngs-bind-c++ +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath/CMakeFiles/Build-srapath.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/DependInfo.cmake "--color=" +[ 40%] Building CXX object ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/dispatch/CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -MF CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o.d -o CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/dispatch/ErrorMsg.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 40%] Building C object tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-copy\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-copy/CMakeFiles/vdb-copy.dir/vdb-copy.c.o -MF CMakeFiles/vdb-copy.dir/vdb-copy.c.o.d -o CMakeFiles/vdb-copy.dir/vdb-copy.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.c +[ 40%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-json-parse.cpp +[ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c +[ 40%] Building CXX object ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o +[ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-py -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ngs-sdk/language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -MF CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o.d -o CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/language/python/py_StringItf.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DSEQUENCE_BEFORE_SECONDARY=0 -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -MF CMakeFiles/sra-sort-cg.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort-cg.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c +[ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o -MF CMakeFiles/ngs.dir/NGS_Fragment.c.o.d -o CMakeFiles/ngs.dir/NGS_Fragment.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Fragment.c +[ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -MF CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o.d -o CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/xcheck-ref-align.c +[ 40%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-tbl.c.o -MF CMakeFiles/sra-sort.dir/csra-tbl.c.o.d -o CMakeFiles/sra-sort.dir/csra-tbl.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-tbl.c +[ 40%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o -MF CMakeFiles/ngs.dir/NGS_Refcount.c.o.d -o CMakeFiles/ngs.dir/NGS_Refcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Refcount.c +[ 41%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o -MF CMakeFiles/ngs.dir/NGS_Cursor.c.o.d -o CMakeFiles/ngs.dir/NGS_Cursor.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Cursor.c +[ 41%] Linking C executable ../../../bin/sra-sort-cg +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort-cg.dir/link.txt --verbose=1 +[ 41%] Linking CXX executable ../../../test-bin/Test_Drivertool_BuildVersion +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_BuildVersion.dir/link.txt --verbose=1 +[ 41%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o +[ 41%] Linking C executable ../../../bin/vdb-copy +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-copy.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o -MF CMakeFiles/ngs.dir/NGS_String.c.o.d -o CMakeFiles/ngs.dir/NGS_String.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_String.c +[ 41%] Linking CXX static library ../../../../ilib/libngs-bind-python.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -P CMakeFiles/ngs-bind-python.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/language/python && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-bind-python.dir/link.txt --verbose=1 +[ 42%] Building C object tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-sort\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -std=c11 -rdynamic -MD -MT tools/loaders/sra-sort/CMakeFiles/sra-sort.dir/csra-pair.c.o -MF CMakeFiles/sra-sort.dir/csra-pair.c.o.d -o CMakeFiles/sra-sort.dir/csra-pair.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-sort/csra-pair.c +[ 42%] Linking CXX static library ../../../ilib/libngs-disp.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -P CMakeFiles/ngs-disp.dir/cmake_clean_target.cmake +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort-cg.dir/link.d "CMakeFiles/sra-sort-cg.dir/caps.c.o" "CMakeFiles/sra-sort-cg.dir/mem.c.o" "CMakeFiles/sra-sort-cg.dir/membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-membank.c.o" "CMakeFiles/sra-sort-cg.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort-cg.dir/except.c.o" "CMakeFiles/sra-sort-cg.dir/idx-mapping.c.o" "CMakeFiles/sra-sort-cg.dir/map-file.c.o" "CMakeFiles/sra-sort-cg.dir/col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/row-set.c.o" "CMakeFiles/sra-sort-cg.dir/simple-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort-cg.dir/meta-pair.c.o" "CMakeFiles/sra-sort-cg.dir/dir-pair.c.o" "CMakeFiles/sra-sort-cg.dir/tbl-pair.c.o" "CMakeFiles/sra-sort-cg.dir/db-pair.c.o" "CMakeFiles/sra-sort-cg.dir/glob-poslen.c.o" "CMakeFiles/sra-sort-cg.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort-cg.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort-cg.dir/buff-writer.c.o" "CMakeFiles/sra-sort-cg.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort-cg.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort-cg.dir/run.c.o" "CMakeFiles/sra-sort-cg.dir/sra-sort.c.o" "CMakeFiles/sra-sort-cg.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort-cg.dir/csra-tbl.c.o" "CMakeFiles/sra-sort-cg.dir/csra-pair.c.o" -o ../../../bin/sra-sort-cg /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort-cg.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort-cg sra-sort-cg.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3.0.9 sra-sort-cg.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort-cg.3 sra-sort-cg +[ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o -MF CMakeFiles/ngs.dir/NGS_Id.c.o.d -o CMakeFiles/ngs.dir/NGS_Id.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_Id.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/dispatch && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-disp.dir/link.txt --verbose=1 +[ 42%] Built target sra-sort-cg +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-copy.dir/link.d "CMakeFiles/vdb-copy.dir/context.c.o" "CMakeFiles/vdb-copy.dir/helper.c.o" "CMakeFiles/vdb-copy.dir/coldefs.c.o" "CMakeFiles/vdb-copy.dir/get_platform.c.o" "CMakeFiles/vdb-copy.dir/copy_meta.c.o" "CMakeFiles/vdb-copy.dir/type_matcher.c.o" "CMakeFiles/vdb-copy.dir/redactval.c.o" "CMakeFiles/vdb-copy.dir/config_values.c.o" "CMakeFiles/vdb-copy.dir/vdb-copy.c.o" -o ../../../bin/vdb-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +/usr/bin/ar qc ../../../../ilib/libngs-bind-python.a "CMakeFiles/ngs-bind-python.dir/py_AlignmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_AlignmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_FragmentIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PackageItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupEventIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_PileupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadCollectionItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadGroupIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReadIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceIteratorItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StatisticsItf.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" +/usr/bin/ranlib ../../../../ilib/libngs-bind-python.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build -[ 81%] Built target check-redact -[ 81%] Linking C executable ../../../bin/test-download -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/samview-util.dir/link.d "CMakeFiles/samview-util.dir/samview.c.o" -o ../../../bin/samview-util /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -[ 81%] Built target copycat -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/test-download && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-download.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f samview-util.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-copy.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-copy vdb-copy.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3.0.9 vdb-copy.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3 vdb-copy +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build'. +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/vdb-copy.kfg make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/depend -[ 81%] Built target kdb-index -make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/depend +[ 42%] Built target ngs-bind-python +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv samview-util samview-util.3.0.9 +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/DependInfo.cmake "--color=" -[ 82%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/DependInfo.cmake "--color=" +[ 42%] Linking C executable ../../../bin/sra-sort +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-sort && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-sort.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/build -[ 82%] Built target sortreadtest +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/build +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_BuildVersion.dir/link.d "CMakeFiles/Test_Drivertool_BuildVersion.dir/test-build-version.cpp.o" -o ../../../test-bin/Test_Drivertool_BuildVersion +/usr/bin/ar qc ../../../ilib/libngs-disp.a "CMakeFiles/ngs-disp.dir/ReadCollectionItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReferenceSequenceItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupItf.cpp.o" "CMakeFiles/ngs-disp.dir/PileupEventItf.cpp.o" "CMakeFiles/ngs-disp.dir/AlignmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadGroupItf.cpp.o" "CMakeFiles/ngs-disp.dir/ReadItf.cpp.o" "CMakeFiles/ngs-disp.dir/FragmentItf.cpp.o" "CMakeFiles/ngs-disp.dir/StatisticsItf.cpp.o" "CMakeFiles/ngs-disp.dir/PackageItf.cpp.o" "CMakeFiles/ngs-disp.dir/StringItf.cpp.o" "CMakeFiles/ngs-disp.dir/Refcount.cpp.o" "CMakeFiles/ngs-disp.dir/VTable.cpp.o" "CMakeFiles/ngs-disp.dir/ErrBlock.cpp.o" "CMakeFiles/ngs-disp.dir/ErrorMsg.cpp.o" +/usr/bin/ranlib ../../../ilib/libngs-disp.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/srapath/CMakeFiles/Build-srapath.dir/build'. +[ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3.0.9 samview-util.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -MF CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o.d -o CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-sdl-response.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/schema-replace.dir/link.d "CMakeFiles/schema-replace.dir/schema-replace.c.o" -o ../../../bin/schema-replace /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -[ 82%] Built target Build-kdbmeta +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/build +[ 42%] Built target vdb-copy make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 82%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -[ 82%] Built target pacbio-correct -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f schema-replace.3.0.9 -make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/depend +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s samview-util.3 samview-util -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv schema-replace schema-replace.3.0.9 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp -make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/DependInfo.cmake "--color=" +[ 42%] Built target Test_Drivertool_BuildVersion +[ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -MF CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o.d -o CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp +[ 42%] Built target ngs-disp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build'. +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/DependInfo.cmake "--color=" +make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/DependInfo.cmake "--color=" +[ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -MF CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o.d -o CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-uuid.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build -[ 82%] Built target make-read-filter -[ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build.make test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3.0.9 schema-replace.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp -[ 83%] Built target Build-srapath -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s schema-replace.3 schema-replace -[ 83%] Building CXX object test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/depend -[ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -[ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build.make test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -MF CMakeFiles/ngs.dir/NGS_ErrBlock.c.o.d -o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ErrBlock.c +[ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp +[ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o +[ 42%] Building CXX object test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/prefetch/CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -MF CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o.d -o CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch/test-quality.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlob.c +[ 42%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-tool-args.cpp +[ 42%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_FragmentBlobIterator.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wno-unused-const-variable -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-sort.dir/link.d "CMakeFiles/sra-sort.dir/caps.c.o" "CMakeFiles/sra-sort.dir/mem.c.o" "CMakeFiles/sra-sort.dir/membank.c.o" "CMakeFiles/sra-sort.dir/paged-membank.c.o" "CMakeFiles/sra-sort.dir/paged-mmapbank.c.o" "CMakeFiles/sra-sort.dir/except.c.o" "CMakeFiles/sra-sort.dir/idx-mapping.c.o" "CMakeFiles/sra-sort.dir/map-file.c.o" "CMakeFiles/sra-sort.dir/col-pair.c.o" "CMakeFiles/sra-sort.dir/row-set.c.o" "CMakeFiles/sra-sort.dir/simple-row-set.c.o" "CMakeFiles/sra-sort.dir/mapping-row-set.c.o" "CMakeFiles/sra-sort.dir/sorting-row-set.c.o" "CMakeFiles/sra-sort.dir/meta-pair.c.o" "CMakeFiles/sra-sort.dir/dir-pair.c.o" "CMakeFiles/sra-sort.dir/tbl-pair.c.o" "CMakeFiles/sra-sort.dir/db-pair.c.o" "CMakeFiles/sra-sort.dir/glob-poslen.c.o" "CMakeFiles/sra-sort.dir/poslen-col-pair.c.o" "CMakeFiles/sra-sort.dir/ref-alignid-col.c.o" "CMakeFiles/sra-sort.dir/buff-writer.c.o" "CMakeFiles/sra-sort.dir/id-mapper-col.c.o" "CMakeFiles/sra-sort.dir/capture-first-half-aligned.c.o" "CMakeFiles/sra-sort.dir/run.c.o" "CMakeFiles/sra-sort.dir/sra-sort.c.o" "CMakeFiles/sra-sort.dir/xcheck-ref-align.c.o" "CMakeFiles/sra-sort.dir/csra-tbl.c.o" "CMakeFiles/sra-sort.dir/csra-pair.c.o" -o ../../../bin/sra-sort /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lbz2 -llzma +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-sort.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-sort sra-sort.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3.0.9 sra-sort.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-sort.3 sra-sort make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-diff.dir/link.d "CMakeFiles/vdb-diff.dir/namelist_tools.c.o" "CMakeFiles/vdb-diff.dir/coldefs.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff-context.c.o" "CMakeFiles/vdb-diff.dir/cmn.c.o" "CMakeFiles/vdb-diff.dir/row_by_row.c.o" "CMakeFiles/vdb-diff.dir/col_by_col.c.o" "CMakeFiles/vdb-diff.dir/vdb-diff.c.o" -o ../../../bin/vdb-diff /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -[ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/json-parse.cpp -[ 83%] Built target Build-sra-stat +[ 42%] Built target sra-sort +make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-diff.3.0.9 -make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-diff vdb-diff.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 83%] Built target Build-sra-pileup -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3.0.9 vdb-diff.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-diff.3 vdb-diff -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/DependInfo.cmake "--color=" make -f test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build.make test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/build -[ 83%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 83%] Linking CXX executable ../../../bin/align-cache -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/align-cache && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-cache.dir/link.txt --verbose=1 -[ 83%] Built target samview-util -make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/depend +[ 43%] Linking CXX executable ../../../test-bin/SlowTest_Prefetch make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/DependInfo.cmake "--color=" -[ 83%] Built target schema-replace +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Prefetch.dir/link.txt --verbose=1 +[ 43%] Building CXX object test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -MF CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o.d -o CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat/testAssemblyStatistics.cpp +[ 43%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlob.c +[ 43%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -MF CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o.d -o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/NGS_ReferenceBlobIterator.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Prefetch.dir/link.d "CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o" -o ../../../test-bin/SlowTest_Prefetch /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 43%] Built target SlowTest_Prefetch +make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/read-filter-redact.dir/link.d "CMakeFiles/read-filter-redact.dir/read-filter-redact.c.o" -o ../../../bin/read-filter-redact /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f read-filter-redact.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv read-filter-redact read-filter-redact.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testld.dir/link.d CMakeFiles/testld.dir/testld.c.o -o ../../../bin/testld /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build.make test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/build -[ 83%] Built target vdb-diff -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3.0.9 read-filter-redact.3 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 43%] Building CXX object test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -MF CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o.d -o CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config-model.cpp +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/sratools.hpp:31, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/run-source.hpp:39, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp:38: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +[ 44%] Building C object ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o -MF CMakeFiles/ngs.dir/VByteBlob.c.o.d -o CMakeFiles/ngs.dir/VByteBlob.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs/VByteBlob.c +[ 44%] Building C object tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/test-tools/sam-analyze/CMakeFiles/sam-analyze.dir/sqlite3.c.o -MF CMakeFiles/sam-analyze.dir/sqlite3.c.o.d -o CMakeFiles/sam-analyze.dir/sqlite3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/sam-analyze/sqlite3.c +[ 44%] Linking C static library ../../../ilib/libngs.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -P CMakeFiles/ngs.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs.dir/link.txt --verbose=1 +/usr/bin/ar qc ../../../ilib/libngs.a "CMakeFiles/ngs.dir/NCBI-NGS.c.o" CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o CMakeFiles/ngs.dir/CSRA1_Pileup.c.o CMakeFiles/ngs.dir/CSRA1_Alignment.c.o CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o CMakeFiles/ngs.dir/CSRA1_Reference.c.o CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o CMakeFiles/ngs.dir/CSRA1_Read.c.o CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o CMakeFiles/ngs.dir/SRA_Statistics.c.o CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_Read.c.o CMakeFiles/ngs.dir/SRA_ReadGroup.c.o CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o CMakeFiles/ngs.dir/SRA_ReadCollection.c.o CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Statistics.c.o CMakeFiles/ngs.dir/NGS_ReadCollection.c.o CMakeFiles/ngs.dir/NGS_PileupEvent.c.o CMakeFiles/ngs.dir/NGS_Pileup.c.o CMakeFiles/ngs.dir/NGS_ReadGroup.c.o CMakeFiles/ngs.dir/NGS_Alignment.c.o CMakeFiles/ngs.dir/NGS_Reference.c.o CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o CMakeFiles/ngs.dir/NGS_Read.c.o CMakeFiles/ngs.dir/NGS_Fragment.c.o CMakeFiles/ngs.dir/NGS_Cursor.c.o CMakeFiles/ngs.dir/NGS_Refcount.c.o CMakeFiles/ngs.dir/NGS_String.c.o CMakeFiles/ngs.dir/NGS_Id.c.o CMakeFiles/ngs.dir/NGS_ErrBlock.c.o CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o CMakeFiles/ngs.dir/VByteBlob.c.o +/usr/bin/ranlib ../../../ilib/libngs.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build -[ 84%] Linking C executable ../../../bin/rowwritetest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s read-filter-redact.3 read-filter-redact +[ 44%] Built target ngs +make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/rowwritetest && /usr/bin/cmake -E cmake_link_script CMakeFiles/rowwritetest.dir/link.txt --verbose=1 -make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f testld.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/DependInfo.cmake "--color=" +Note: ngs_test_lib_load.java uses unchecked or unsafe operations. +Note: Recompile with -Xlint:unchecked for details. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 84%] Linking C executable ../../../bin/meta-repair -[ 84%] Building CXX object test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o +make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/meta-repair && /usr/bin/cmake -E cmake_link_script CMakeFiles/meta-repair.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-stat/CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -MF CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o.d -o CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat/testAssemblyStatistics.cpp +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.cpp:36, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-accession.cpp:39: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_compiled_test-ngs-java +[ 44%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-spec.cpp +[ 44%] Generating CMakeFiles/test-ngs-java.dir/java_class_filelist +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake +[ 45%] Creating Java archive test-ngs-java.jar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar @java_class_filelist +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=test-ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target test-ngs-java +make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv testld testld.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build -[ 84%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -[ 84%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o +make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3.0.9 testld.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp -[ 84%] Linking C executable ../../../bin/txt2kdb -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/txt2kdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/txt2kdb.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s testld.3 testld -[ 84%] Building CXX object test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -[ 84%] Built target read-filter-redact -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-config/CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -MF CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o.d -o CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config/test-vdb-config-model.cpp +[ 45%] Linking CXX executable ../../../test-bin/Test_Drivertool_CommandLine +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_CommandLine.dir/link.txt --verbose=1 +[ 45%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-alias.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_CommandLine.dir/link.d "CMakeFiles/Test_Drivertool_CommandLine.dir/test-command-line.cpp.o" -o ../../../test-bin/Test_Drivertool_CommandLine +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 45%] Built target Test_Drivertool_CommandLine make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-download.dir/link.d "CMakeFiles/test-download.dir/test-download.c.o" -o ../../../bin/test-download /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-download.3.0.9 -[ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-spec.cpp -[ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -MF CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o.d -o CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/makedb.cpp -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build.make test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/build +make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-download test-download.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3.0.9 test-download.3 -[ 84%] Building CXX object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -MF CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o.d -o CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/test-view-alias.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-download.3 test-download +[ 45%] Building CXX object test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -MF CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o.d -o CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate/test-vdb-validate.cpp +[ 45%] Linking CXX executable ../../../bin/sra-info +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-info.dir/link.txt --verbose=1 +[ 45%] Linking CXX executable ../../../test-bin/Test_Drivertool_Accession +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_Accession.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_Accession.dir/link.d "CMakeFiles/Test_Drivertool_Accession.dir/test-accession.cpp.o" -o ../../../test-bin/Test_Drivertool_Accession make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 84%] Built target testld +[ 45%] Built target Test_Drivertool_Accession make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/depend -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build.make test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/build -make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build.make test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 84%] Building CXX object test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-validate/CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -MF CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o.d -o CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate/test-vdb-validate.cpp -[ 84%] Built target test-download -make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/meta-repair.dir/link.d "CMakeFiles/meta-repair.dir/meta-repair.c.o" -o ../../../bin/meta-repair /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f meta-repair.3.0.9 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv meta-repair meta-repair.3.0.9 -[ 85%] Building CXX object test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o +[ 46%] Building CXX object test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/sra-info\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-info -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/sra-info/CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -MF CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o.d -o CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info/test-sra-info.cpp -make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/DependInfo.cmake "--color=" -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rowwritetest.dir/link.d CMakeFiles/rowwritetest.dir/rowwritetest.c.o -o ../../../bin/rowwritetest /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3.0.9 meta-repair.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s meta-repair.3 meta-repair -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rowwritetest.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rowwritetest rowwritetest.3.0.9 -[ 85%] Built target Build-latf-load -make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/depend -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3.0.9 rowwritetest.3 -make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/txt2kdb.dir/link.d CMakeFiles/txt2kdb.dir/txt2kdb.c.o -o ../../../bin/txt2kdb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/DependInfo.cmake "--color=" -make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f txt2kdb.3.0.9 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv txt2kdb txt2kdb.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rowwritetest.3 rowwritetest -[ 86%] Linking CXX executable ../../../test-bin/SlowTest_Prefetch -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Prefetch.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3.0.9 txt2kdb.3 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s txt2kdb.3 txt2kdb -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 86%] Built target meta-repair +[ 46%] Linking CXX executable ../../../test-bin/Test_Drivertool_UUID +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_UUID.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-info.dir/link.d "CMakeFiles/sra-info.dir/main.cpp.o" "CMakeFiles/sra-info.dir/sra-info.cpp.o" "CMakeFiles/sra-info.dir/formatter.cpp.o" -o ../../../bin/sra-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-info.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-info sra-info.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3.0.9 sra-info.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3 sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build -[ 86%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -[ 86%] Building CXX object test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -MF CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o.d -o CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-id2name.cpp -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq.cpp +[ 46%] Built target sra-info +make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/DependInfo.cmake "--color=" -[ 86%] Built target rowwritetest -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-cache.dir/link.d "CMakeFiles/align-cache.dir/align-cache.cpp.o" "CMakeFiles/align-cache.dir/helper.cpp.o" -o ../../../bin/align-cache /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-cache.3.0.9 -[ 87%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/DependInfo.cmake "--color=" +[ 46%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-alias +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-alias.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq-parse.cpp -[ 87%] Built target txt2kdb -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-cache align-cache.3.0.9 -make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build +make -f test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build.make test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3.0.9 align-cache.3 -[ 87%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-cache.3 align-cache +[ 46%] Building CXX object test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/bam-load/CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -MF CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o.d -o CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load/sam-platform.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_UUID.dir/link.d "CMakeFiles/Test_Drivertool_UUID.dir/test-uuid.cpp.o" -o ../../../test-bin/Test_Drivertool_UUID make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -[ 87%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -[ 87%] Linking CXX executable ../../../../test-bin/makeinputs -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/makeinputs.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-fastq-loader.cpp -[ 87%] Built target align-cache +[ 46%] Built target Test_Drivertool_UUID make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Prefetch.dir/link.d "CMakeFiles/SlowTest_Prefetch.dir/test-quality.cpp.o" -o ../../../test-bin/SlowTest_Prefetch /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 87%] Linking C executable ../../../bin/vdb-copy -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-copy.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build.make test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 87%] Built target SlowTest_Prefetch -make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/depend -[ 87%] Building C object test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-alias.dir/link.d "CMakeFiles/Test_Vdb_dump_view-alias.dir/test-view-alias.cpp.o" -o ../../../test-bin/Test_Vdb_dump_view-alias /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 46%] Building C object test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o +[ 46%] Linking CXX executable ../../../test-bin/testAssemblyStatistics +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/testAssemblyStatistics.dir/link.txt --verbose=1 +[ 46%] Built target Test_Vdb_dump_view-alias cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -MF CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o.d -o CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/qfiletest.c +make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 87%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o +[ 46%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -MF CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o.d -o CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/test-loaderfile.cpp -[ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c -[ 88%] Linking CXX executable ../../../bin/sra-info -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-info.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/makeinputs.dir/link.d CMakeFiles/makeinputs.dir/makeinputs.cpp.o CMakeFiles/makeinputs.dir/testsource.cpp.o -o ../../../../test-bin/makeinputs ../../../../ilib/libgeneral-writer.a -lncbi-vdb +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testAssemblyStatistics.dir/link.d CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -o ../../../test-bin/testAssemblyStatistics /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-copy.dir/link.d "CMakeFiles/vdb-copy.dir/context.c.o" "CMakeFiles/vdb-copy.dir/helper.c.o" "CMakeFiles/vdb-copy.dir/coldefs.c.o" "CMakeFiles/vdb-copy.dir/get_platform.c.o" "CMakeFiles/vdb-copy.dir/copy_meta.c.o" "CMakeFiles/vdb-copy.dir/type_matcher.c.o" "CMakeFiles/vdb-copy.dir/redactval.c.o" "CMakeFiles/vdb-copy.dir/config_values.c.o" "CMakeFiles/vdb-copy.dir/vdb-copy.c.o" -o ../../../bin/vdb-copy /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-copy.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-copy vdb-copy.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3.0.9 vdb-copy.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-copy.3 vdb-copy -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-copy && /usr/bin/cmake -E copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-copy/vdb-copy.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/vdb-copy.kfg -[ 88%] Linking CXX executable ../../../bin/general-loader -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-loader.dir/link.txt --verbose=1 -[ 88%] Built target makeinputs +[ 46%] Built target testAssemblyStatistics make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader/CMakeFiles/Test_LOADER.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/loaders/loader/CMakeFiles/Test_LOADER.dir/build.make test/loaders/loader/CMakeFiles/Test_LOADER.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/sratools.hpp:31, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/run-source.hpp:39, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/test-run-source.cpp:38: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -[ 88%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -[ 88%] Linking C executable ../../../test-bin/Test_KAPP_qfile +[ 46%] Building CXX object test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/loaders/loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/loader/CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -MF CMakeFiles/Test_LOADER.dir/loadertest.cpp.o.d -o CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp +[ 46%] Linking CXX executable ../../../test-bin/Test_BamLoader_platform +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_BamLoader_platform.dir/link.txt --verbose=1 +[ 46%] Linking C executable ../../../test-bin/Test_KAPP_qfile cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KAPP_qfile.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' - 82 | for (auto ext : make_sequence(&extensions[1], 3)) { - | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ -[ 88%] Built target vdb-copy +[ 46%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.cpp.o -MF CMakeFiles/sratools.dir/proc.cpp.o.d -o CMakeFiles/sratools.dir/proc.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_BamLoader_platform.dir/link.d "CMakeFiles/Test_BamLoader_platform.dir/sam-platform.cpp.o" -o ../../../test-bin/Test_BamLoader_platform +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target Test_BamLoader_platform make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/Test_Align_samextract.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/align/CMakeFiles/Test_Align_samextract.dir/build.make test/internal/align/CMakeFiles/Test_Align_samextract.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KAPP_qfile.dir/link.d CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -o ../../../test-bin/Test_KAPP_qfile ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:307:117: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 307 | REQUIRE_RC ( KLoaderMeta_Write ( node, LoaderName.c_str(), __DATE__, FormatterName.c_str(), KAppVersion() ) ); | ^ @@ -5694,293 +4412,1704 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/loader/loadertest.cpp:364:80: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 364 | REQUIRE_EQ ( string ( __DATE__), GetMetadata ( "SOFTWARE/loader", "date" ) ); | ^ -[ 88%] Building CXX object test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o +[ 46%] Building CXX object test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -MF CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o.d -o CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/test-samextract.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/general-loader.dir/link.d "CMakeFiles/general-loader.dir/general-loader.cpp.o" "CMakeFiles/general-loader.dir/protocol-parser.cpp.o" "CMakeFiles/general-loader.dir/database-loader.cpp.o" "CMakeFiles/general-loader.dir/main.cpp.o" -o ../../../bin/general-loader ../../../ilib/libgeneral-writer.a ../../../ilib/libloader.a -lkapp ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -[ 88%] Built target Test_KAPP_qfile -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f general-loader.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv general-loader general-loader.3.0.9 -make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3.0.9 general-loader.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3 general-loader -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 88%] Linking CXX executable ../../../bin/sratools -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/sratools.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-info.dir/link.d "CMakeFiles/sra-info.dir/main.cpp.o" "CMakeFiles/sra-info.dir/sra-info.cpp.o" "CMakeFiles/sra-info.dir/formatter.cpp.o" -o ../../../bin/sra-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-info.3.0.9 -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache/CMakeFiles/Build-align-cache.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-info sra-info.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3.0.9 sra-info.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-info.3 sra-info -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build -[ 88%] Built target general-loader -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build'. +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KAPP_qfile.dir/link.d CMakeFiles/Test_KAPP_qfile.dir/qfiletest.c.o -o ../../../test-bin/Test_KAPP_qfile ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 46%] Built target Test_KAPP_qfile make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Build-copycat.dir/DependInfo.cmake "--color=" -[ 88%] Built target Build-align-cache -[ 88%] Linking CXX executable ../../../test-bin/vdb-dump-makedb -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump-makedb.dir/link.txt --verbose=1 -[ 88%] Built target sra-info make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/depend -make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Test_KFF.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/DependInfo.cmake "--color=" make -f test/internal/copycat/CMakeFiles/Build-copycat.dir/build.make test/internal/copycat/CMakeFiles/Build-copycat.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o make[3]: Nothing to be done for 'test/internal/copycat/CMakeFiles/Build-copycat.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/build +[ 46%] Built target Build-copycat +make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target Build-copycat +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat/CMakeFiles/Test_KFF.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build +make -f test/internal/copycat/CMakeFiles/Test_KFF.dir/build.make test/internal/copycat/CMakeFiles/Test_KFF.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 88%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -[ 88%] Building CXX object test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c +[ 46%] Building CXX object test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/kfftest.cpp.o -MF CMakeFiles/Test_KFF.dir/kfftest.cpp.o.d -o CMakeFiles/Test_KFF.dir/kfftest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/copycat/kfftest.cpp -[ 88%] Built target Build-make-read-filter +[ 47%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void printEnvironment(bool)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:67:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' + 67 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp: In function 'void testing_5()': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:93: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.cpp:91:35: note: the temporary was destroyed at the end of the full expression 'make_sequence(constants::env_var::names(), ((size_t)constants::env_var::END_ENUM))' + 91 | for (auto name : make_sequence(constants::env_var::names(), constants::env_var::END_ENUM)) { + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +[ 47%] Linking CXX executable ../../../test-bin/Test_LOADERFILE +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADERFILE.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADERFILE.dir/link.d "CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o" -o ../../../test-bin/Test_LOADERFILE ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 47%] Built target Test_LOADERFILE make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/DependInfo.cmake "--color=" -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:113: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:214:7: warning: 'sha1_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] - 214 | class sha1_filter : public sha_filter - | ^~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:218:7: warning: 'sha224_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] - 218 | class sha224_filter : public sha_filter - | ^~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:222:7: warning: 'sha256_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] - 222 | class sha256_filter : public sha_filter - | ^~~~~~~~~~~~~ -[ 88%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build.make test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/read-filter-redact/CMakeFiles/Build-read-filter-redact.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target Build-read-filter-redact +[ 47%] Built target Build-read-filter-redact make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/DependInfo.cmake "--color=" -[ 88%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump-makedb.dir/link.d "CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o" -o ../../../test-bin/vdb-dump-makedb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build.make test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-copy/CMakeFiles/Build-vdb-copy.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 88%] Built target vdb-dump-makedb +[ 47%] Built target Build-vdb-copy make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/depend -[ 89%] Built target Build-vdb-copy -[ 89%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c -make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sratools.dir/link.d CMakeFiles/sratools.dir/sratools.cpp.o CMakeFiles/sratools.dir/config.cpp.o "CMakeFiles/sratools.dir/command-line.cpp.o" "CMakeFiles/sratools.dir/run-source.cpp.o" CMakeFiles/sratools.dir/proc.cpp.o CMakeFiles/sratools.dir/uuid.cpp.o CMakeFiles/sratools.dir/accession.cpp.o CMakeFiles/sratools.dir/service.cpp.o "CMakeFiles/sratools.dir/json-parse.cpp.o" "CMakeFiles/sratools.dir/SDL-response.cpp.o" "CMakeFiles/sratools.dir/tool-args.cpp.o" "CMakeFiles/sratools.dir/build-version.cpp.o" "CMakeFiles/sratools.dir/file-path.posix.cpp.o" CMakeFiles/sratools.dir/proc.posix.cpp.o -o ../../../bin/sratools /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sratools.3.0.9 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build.make test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/internal/vdb-diff/CMakeFiles/Build-vdb-diff.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 89%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-alias -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sratools sratools.3.0.9 -[ 89%] Building CXX object ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-alias.dir/link.txt --verbose=1 +[ 47%] Built target Build-vdb-diff +make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build.make ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 47%] Building CXX object ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"ngs/ncbi/ngs-c++\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIC -rdynamic -MD -MT ngs/ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -MF CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o.d -o CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs-c++/NCBI-NGS.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sratools.3 -[ 89%] Built target Build-vdb-diff -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3 sratools -make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/depend +[ 47%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o +[ 47%] Linking CXX executable ../../../test-bin/Test_VdbValidate_Unit +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VdbValidate_Unit.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/uuid.cpp.o -MF CMakeFiles/sratools.dir/uuid.cpp.o.d -o CMakeFiles/sratools.dir/uuid.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/uuid.cpp +[ 47%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/input.cpp.o -MF CMakeFiles/qa-stats.dir/input.cpp.o.d -o CMakeFiles/qa-stats.dir/input.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/input.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_VdbValidate_Unit.dir/link.d "CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o" -o ../../../test-bin/Test_VdbValidate_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 47%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o +[ 47%] Built target Test_VdbValidate_Unit +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffext.c +make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/DependInfo.cmake "--color=" -[ 89%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c -[ 89%] Built target sratools -make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-doc-jar.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/javadoc/ngs-doc && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-doc.jar\ . +[ 47%] Linking CXX executable ../../../test-bin/Test_Drivertool_JsonParsing +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_JsonParsing.dir/link.txt --verbose=1 +[ 47%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/accession.cpp.o -MF CMakeFiles/sratools.dir/accession.cpp.o.d -o CMakeFiles/sratools.dir/accession.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp +[ 47%] Linking CXX static library ../../../lib/libncbi-ngs-c++.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -P CMakeFiles/ncbi-ngs-c++.dir/cmake_clean_target.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-c++.dir/link.txt --verbose=1 +[ 47%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffkey.c +/usr/bin/ar qc ../../../lib/libncbi-ngs-c++.a "CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" +/usr/bin/ranlib ../../../lib/libncbi-ngs-c++.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs-c++.a.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs-c++.a libncbi-ngs-c++.a.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3.0.9 libncbi-ngs-c++.a.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3 libncbi-ngs-c++.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a libncbi-ngs-c++-static.a +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_JsonParsing.dir/link.d "CMakeFiles/Test_Drivertool_JsonParsing.dir/test-json-parse.cpp.o" -o ../../../test-bin/Test_Drivertool_JsonParsing make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 47%] Built target Test_Drivertool_JsonParsing +make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/depend +[ 47%] Linking CXX executable ../../../bin/sam-factory make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-src.jar\ \ ngs/ErrorMsg.java\ ngs/Statistics.java\ ngs/Fragment.java\ ngs/FragmentIterator.java\ ngs/Read.java\ ngs/ReadIterator.java\ ngs/ReadGroup.java\ ngs/ReadGroupIterator.java\ ngs/Alignment.java\ ngs/AlignmentIterator.java\ ngs/PileupEvent.java\ ngs/PileupEventIterator.java\ ngs/Pileup.java\ ngs/PileupIterator.java\ ngs/Reference.java\ ngs/ReferenceIterator.java\ ngs/ReadCollection.java\ ngs/Package.java\ ngs/itf/Refcount.java\ ngs/itf/StatisticsItf.java\ ngs/itf/FragmentItf.java\ ngs/itf/FragmentIteratorItf.java\ ngs/itf/ReadItf.java\ ngs/itf/ReadIteratorItf.java\ ngs/itf/ReadGroupItf.java\ ngs/itf/ReadGroupIteratorItf.java\ ngs/itf/AlignmentItf.java\ ngs/itf/AlignmentIteratorItf.java\ ngs/itf/PileupEventItf.java\ ngs/itf/PileupEventIteratorItf.java\ ngs/itf/PileupItf.java\ ngs/itf/PileupIteratorItf.java\ ngs/itf/ReferenceItf.java\ ngs/itf/ReferenceIteratorItf.java\ ngs/itf/ReadCollectionItf.java\ gov/nih/nlm/ncbi/ngs/DownloadManager.java\ gov/nih/nlm/ncbi/ngs/FileCreator.java\ gov/nih/nlm/ncbi/ngs/HttpManager.java\ gov/nih/nlm/ncbi/ngs/LibDependencies.java\ gov/nih/nlm/ncbi/ngs/LibManager.java\ gov/nih/nlm/ncbi/ngs/LibPathIterator.java\ gov/nih/nlm/ncbi/ngs/LibVersionChecker.java\ gov/nih/nlm/ncbi/ngs/LMProperties.java\ gov/nih/nlm/ncbi/ngs/Logger.java\ gov/nih/nlm/ncbi/ngs/Manager.java\ gov/nih/nlm/ncbi/ngs/NGS.java\ gov/nih/nlm/ncbi/ngs/Version.java\ gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java\ gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/DependInfo.cmake "--color=" +[ 47%] Built target ncbi-ngs-c++ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-factory.dir/link.txt --verbose=1 make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/DependInfo.cmake "--color=" -make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/gw-dumper.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build.make ngs/ngs-java/CMakeFiles/ngs-src-jar.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java && bash -c /usr/bin/jar\ -cf\ /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-src.jar\ \ ngs/ErrorMsg.java\ ngs/Statistics.java\ ngs/Fragment.java\ ngs/FragmentIterator.java\ ngs/Read.java\ ngs/ReadIterator.java\ ngs/ReadGroup.java\ ngs/ReadGroupIterator.java\ ngs/Alignment.java\ ngs/AlignmentIterator.java\ ngs/PileupEvent.java\ ngs/PileupEventIterator.java\ ngs/Pileup.java\ ngs/PileupIterator.java\ ngs/Reference.java\ ngs/ReferenceIterator.java\ ngs/ReadCollection.java\ ngs/Package.java\ ngs/itf/Refcount.java\ ngs/itf/StatisticsItf.java\ ngs/itf/FragmentItf.java\ ngs/itf/FragmentIteratorItf.java\ ngs/itf/ReadItf.java\ ngs/itf/ReadIteratorItf.java\ ngs/itf/ReadGroupItf.java\ ngs/itf/ReadGroupIteratorItf.java\ ngs/itf/AlignmentItf.java\ ngs/itf/AlignmentIteratorItf.java\ ngs/itf/PileupEventItf.java\ ngs/itf/PileupEventIteratorItf.java\ ngs/itf/PileupItf.java\ ngs/itf/PileupIteratorItf.java\ ngs/itf/ReferenceItf.java\ ngs/itf/ReferenceIteratorItf.java\ ngs/itf/ReadCollectionItf.java\ gov/nih/nlm/ncbi/ngs/DownloadManager.java\ gov/nih/nlm/ncbi/ngs/FileCreator.java\ gov/nih/nlm/ncbi/ngs/HttpManager.java\ gov/nih/nlm/ncbi/ngs/LibDependencies.java\ gov/nih/nlm/ncbi/ngs/LibManager.java\ gov/nih/nlm/ncbi/ngs/LibPathIterator.java\ gov/nih/nlm/ncbi/ngs/LibVersionChecker.java\ gov/nih/nlm/ncbi/ngs/LMProperties.java\ gov/nih/nlm/ncbi/ngs/Logger.java\ gov/nih/nlm/ncbi/ngs/Manager.java\ gov/nih/nlm/ncbi/ngs/NGS.java\ gov/nih/nlm/ncbi/ngs/Version.java\ gov/nih/nlm/ncbi/ngs/error/LibraryLoadError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryNotFoundError.java\ gov/nih/nlm/ncbi/ngs/error/LibraryIncompatibleVersionError.java\ gov/nih/nlm/ncbi/ngs/error/cause/ConnectionProblemCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/DownloadDisabledCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/InvalidLibraryCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/JvmErrorCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/LibraryLoadCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/OutdatedJarCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/PrereleaseReqLibCause.java\ gov/nih/nlm/ncbi/ngs/error/cause/UnsupportedArchCause.java make -f ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build.make ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 48%] Building Java objects for ngs-examples.jar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_sources +[ 48%] Built target ngs-doc-jar +make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/DependInfo.cmake "--color=" +[ 49%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/fileformat.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build.make libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 49%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp +[ 49%] Building CXX object libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -MF CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o.d -o CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_makedb.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-factory.dir/link.d "CMakeFiles/sam-factory.dir/sam-factory.cpp.o" -o ../../../bin/sam-factory /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 49%] Built target sam-factory +make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/CMakeFiles/gw-dumper.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/CMakeFiles/gw-dumper.dir/build.make libs/general-writer/CMakeFiles/gw-dumper.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building Java objects for ngs-examples.jar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClearClassFiles.cmake --log-level STATUS +[ 49%] Building CXX object libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -MF CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o.d -o CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/gw-dumper.cpp +[ 49%] Building C object test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/copycat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/internal/copycat/CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -MF CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o.d -o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/copycat/kff/ffmagic.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 49%] Built target ngs-src-jar make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test/CMakeFiles/test-general-writer.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/javac -classpath :/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib:/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-java.jar -d /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir @/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_sources -make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/depend -[ 90%] Building CXX object libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch/CMakeFiles/prefetch.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -MF CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o.d -o CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/gw-dumper.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/general-writer/test/CMakeFiles/test-general-writer.dir/build.make libs/general-writer/test/CMakeFiles/test-general-writer.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 49%] Building CXX object libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -MF CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o.d -o CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.cpp:36: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +[ 49%] Linking CXX executable ../../../test-bin/Test_KFF +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFF.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KFF.dir/link.d CMakeFiles/Test_KFF.dir/kfftest.cpp.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -o ../../../test-bin/Test_KFF /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmagic +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 49%] Built target Test_KFF +make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch/CMakeFiles/prefetch.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/prefetch/CMakeFiles/prefetch.dir/build.make tools/external/prefetch/CMakeFiles/prefetch.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o -[ 90%] Building CXX object libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o +[ 49%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/kfile-no-q.c.o -MF CMakeFiles/prefetch.dir/kfile-no-q.c.o.d -o CMakeFiles/prefetch.dir/kfile-no-q.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/kfile-no-q.c -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/general-writer/test/CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -MF CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o.d -o CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp -In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/fmt.h:24, - from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:100: -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = fmt::v8::basic_string_view; typename std::enable_if::type = 0]': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {fmt::v8::basic_string_view, char [3]}]' - 1692 | data_{detail::make_arg< - | ~~~~~~~~~~~~~~~~~ - 1693 | is_packed, Context, - | ~~~~~~~~~~~~~~~~~~~ - 1694 | detail::mapped_type_constant::value>(args)...} { - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'OutputIt fmt::v8::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' - 1710 | return {args...}; - | ^ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/format-inl.h:74:14: required from here - 74 | format_to(it, FMT_STRING("{}{}"), message, SEP); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:2915:52: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(((const fmt::v8::basic_string_view&)args#0), args#1)' -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] - 1566 | const auto& arg = arg_mapper().map(val); - | ^~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' - 1566 | const auto& arg = arg_mapper().map(val); - | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ +[ 50%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -MF CMakeFiles/prefetch.dir/PrfMain.c.o.d -o CMakeFiles/prefetch.dir/PrfMain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfMain.c +[ 50%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/service.cpp.o -MF CMakeFiles/sratools.dir/service.cpp.o.d -o CMakeFiles/sratools.dir/service.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/service.cpp +[ 50%] Linking CXX executable ../../../test-bin/Test_Drivertool_FilePath +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_FilePath.dir/link.txt --verbose=1 +[ 50%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c +[ 50%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_FilePath.dir/link.d "CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o" -o ../../../test-bin/Test_Drivertool_FilePath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp: In function 'void ncbi::runTest(int, const char**, const char*, const char*)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:271:20: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] + 271 | delete gw; + | ^~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:217:24: note: 'gw' was declared here + 217 | GeneralWriter *gw; + | ^~ +[ 50%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o -MF CMakeFiles/prefetch.dir/prefetch.c.o.d -o CMakeFiles/prefetch.dir/prefetch.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/prefetch.c +[ 50%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o +[ 50%] Built target Test_Drivertool_FilePath +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c +[ 51%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c +[ 52%] Linking CXX executable ../../../test-bin/ngs-makedb +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-makedb.dir/link.txt --verbose=1 +[ 52%] Linking CXX executable ../../../test-bin/Test_LOADER +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADER.dir/link.txt --verbose=1 +[ 52%] Linking CXX executable ../../../test-bin/test-general-writer +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-writer.dir/link.txt --verbose=1 +[ 52%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c +[ 52%] Building C object test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -MF CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o.d -o CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c +[ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp +[ 52%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/json-parse.cpp.o -MF CMakeFiles/sratools.dir/json-parse.cpp.o.d -o CMakeFiles/sratools.dir/json-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/json-parse.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-makedb.dir/link.d "CMakeFiles/ngs-makedb.dir/ngstest_makedb.cpp.o" -o ../../../test-bin/ngs-makedb -Wl,-Bstatic -lktst -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADER.dir/link.d CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -o ../../../test-bin/Test_LOADER ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_compiled_ngs-examples +[ 52%] Linking CXX executable ../../../test-bin/Test_Align_samextract +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Align_samextract.dir/link.txt --verbose=1 +[ 52%] Built target ngs-makedb +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-writer.dir/link.d "CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o" -o ../../../test-bin/test-general-writer ../../../ilib/libgeneral-writer.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/depend +[ 52%] Built target Test_LOADER make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config/CMakeFiles/vdb-config.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 52%] Generating CMakeFiles/ngs-examples.dir/java_class_filelist +make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/fastq-dump.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/external/vdb-config/CMakeFiles/vdb-config.dir/build.make tools/external/vdb-config/CMakeFiles/vdb-config.dir/build +[ 52%] Built target test-general-writer +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/sff-dump.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build.make tools/external/sra-dump/CMakeFiles/fastq-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 90%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o +[ 52%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o +[ 52%] Creating Java archive ngs-examples.jar +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-examples.jar @java_class_filelist cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/configure.cpp.o -MF CMakeFiles/vdb-config.dir/configure.cpp.o.d -o CMakeFiles/vdb-config.dir/configure.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/configure.cpp -make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/depend +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/sra-dump/CMakeFiles/sff-dump.dir/build.make tools/external/sra-dump/CMakeFiles/sff-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/factory.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/factory.c.o -MF CMakeFiles/sff-dump.dir/factory.c.o.d -o CMakeFiles/sff-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fasta_dump.c.o -MF CMakeFiles/fastq-dump.dir/fasta_dump.c.o.d -o CMakeFiles/fastq-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Align_samextract.dir/link.d "CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o" -o ../../../test-bin/Test_Align_samextract -lsam-extract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 90%] Built target Test_Vdb_dump_view-alias +[ 52%] Built target Test_Align_samextract +make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/illumina-dump.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/build +make -f tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build.make tools/external/sra-dump/CMakeFiles/illumina-dump.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/sra-info/CMakeFiles/Build-sra-info.dir/build'. +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/factory.c.o -MF CMakeFiles/illumina-dump.dir/factory.c.o.d -o CMakeFiles/illumina-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-examples.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 91%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfMain.c.o -MF CMakeFiles/prefetch.dir/PrfMain.c.o.d -o CMakeFiles/prefetch.dir/PrfMain.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfMain.c -[ 91%] Built target Build-sra-info -[ 91%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o +[ 52%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/SDL-response.cpp.o -MF CMakeFiles/sratools.dir/SDL-response.cpp.o.d -o CMakeFiles/sratools.dir/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o +[ 52%] Built target ngs-examples +make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump/CMakeFiles/abi-dump.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/fasta_dump.c.o -MF CMakeFiles/sff-dump.dir/fasta_dump.c.o.d -o CMakeFiles/sff-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/sra-dump/CMakeFiles/abi-dump.dir/build.make tools/external/sra-dump/CMakeFiles/abi-dump.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/factory.c.o -MF CMakeFiles/abi-dump.dir/factory.c.o.d -o CMakeFiles/abi-dump.dir/factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/factory.c +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/core.c.o -MF CMakeFiles/fastq-dump.dir/core.c.o.d -o CMakeFiles/fastq-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 1011 | ReportBuildDate ( __DATE__ ); + | ^~~~~~~~ +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/fastq-dump.dir/fastq.c.o -MF CMakeFiles/fastq-dump.dir/fastq.c.o.d -o CMakeFiles/fastq-dump.dir/fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fastq.c +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/core.c.o -MF CMakeFiles/sff-dump.dir/core.c.o.d -o CMakeFiles/sff-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c +[ 52%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-spec +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-spec.dir/link.txt --verbose=1 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 1011 | ReportBuildDate ( __DATE__ ); + | ^~~~~~~~ +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/fasta_dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/fasta_dump.c.o -MF CMakeFiles/illumina-dump.dir/fasta_dump.c.o.d -o CMakeFiles/illumina-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-spec.dir/link.d "CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o" -o ../../../test-bin/Test_Vdb_dump_view-spec /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 52%] Linking CXX executable ../../../test-bin/Test_Drivertool_ToolArgs +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_ToolArgs.dir/link.txt --verbose=1 +[ 52%] Built target Test_Vdb_dump_view-spec +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/core.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/illumina-dump.dir/core.c.o -MF CMakeFiles/illumina-dump.dir/core.c.o.d -o CMakeFiles/illumina-dump.dir/core.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c +[ 52%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/fasta_dump.c.o -MF CMakeFiles/abi-dump.dir/fasta_dump.c.o.d -o CMakeFiles/abi-dump.dir/fasta_dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/fasta_dump.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 1011 | ReportBuildDate ( __DATE__ ); + | ^~~~~~~~ +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/sff-dump.dir/sff.c.o -MF CMakeFiles/sff-dump.dir/sff.c.o.d -o CMakeFiles/sff-dump.dir/sff.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/sff.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_ToolArgs.dir/link.d "CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" -o ../../../test-bin/Test_Drivertool_ToolArgs /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 52%] Building C object tools/external/sra-dump/CMakeFiles/illumina-dump.dir/illumina.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/command-line.cpp +[ 54%] Linking CXX executable ../../../test-bin/test-vdb-config-model +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb-config-model.dir/link.txt --verbose=1 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c: In function 'KMain': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/core.c:1011:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 1011 | ReportBuildDate ( __DATE__ ); + | ^~~~~~~~ +[ 54%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/util.cpp.o -MF CMakeFiles/vdb-config.dir/util.cpp.o.d -o CMakeFiles/vdb-config.dir/util.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/util.cpp -[ 91%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/prefetch.c.o -MF CMakeFiles/prefetch.dir/prefetch.c.o.d -o CMakeFiles/prefetch.dir/prefetch.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/prefetch.c -[ 91%] Building C object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o +[ 54%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/build-version.cpp.o +cd 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tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/out_redir.c.o -MF CMakeFiles/sra-pileup.dir/out_redir.c.o.d -o CMakeFiles/sra-pileup.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/gw-dumper.dir/link.d "CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o" -o ../../bin/gw-dumper ../../ilib/libgeneral-writer.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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/build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup/CMakeFiles/sam-dump.dir/DependInfo.cmake "--color=" +[ 54%] Building C object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config.c.o -MF CMakeFiles/vdb-config.dir/vdb-config.c.o.d -o CMakeFiles/vdb-config.dir/vdb-config.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config.c -[ 92%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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&& /usr/bin/cmake -E cmake_link_script CMakeFiles/testAssemblyStatistics.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 92%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -MF CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o.d -o CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config-model.cpp -[ 92%] Built target ngs-src-jar +[ 54%] Linking CXX executable ../../test-bin/test-vdb +make -f tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build.make tools/external/sra-pileup/CMakeFiles/sam-dump.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb.dir/link.txt --verbose=1 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/inputfiles.c.o +cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/inputfiles.c +[ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/perf_log.c.o -MF CMakeFiles/sra-pileup.dir/perf_log.c.o.d -o CMakeFiles/sra-pileup.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/sratools.hpp:31, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.hpp:39, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/run-source.cpp:51: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp: In static member function 'static const char* sratools::Accession::qualityTypeFor(const char*)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:56: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/accession.hpp:82:38: note: the temporary was destroyed at the end of the full expression 'make_sequence((& sratools::Accession::extensions[1]), 3)' + 82 | for (auto ext : make_sequence(&extensions[1], 3)) { + | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ +[ 54%] Linking C executable ../../../bin/sff-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/sff-dump.dir/link.txt --verbose=1 +[ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/reref.c.o -MF CMakeFiles/sra-pileup.dir/reref.c.o.d -o CMakeFiles/sra-pileup.dir/reref.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/reref.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-dump.dir/link.d "CMakeFiles/sff-dump.dir/factory.c.o" "CMakeFiles/sff-dump.dir/fasta_dump.c.o" "CMakeFiles/sff-dump.dir/core.c.o" "CMakeFiles/sff-dump.dir/sff.c.o" -o ../../../bin/sff-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-dump.3.0.9 +[ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/perf_log.c.o -MF CMakeFiles/sam-dump.dir/perf_log.c.o.d -o CMakeFiles/sam-dump.dir/perf_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/perf_log.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-dump sff-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3.0.9 sff-dump.3 +[ 54%] Linking C executable ../../../bin/illumina-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-dump.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-dump.3 sff-dump +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 54%] Built target sff-dump +make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/DependInfo.cmake "--color=" +[ 54%] Linking C executable ../../../bin/fastq-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-dump.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build.make tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb.dir/link.d "CMakeFiles/test-vdb.dir/test-vdb.cpp.o" -o ../../test-bin/test-vdb -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 54%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/helper.c.o -MF CMakeFiles/fasterq-dump.dir/helper.c.o.d -o CMakeFiles/fasterq-dump.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/helper.c +[ 54%] Built target test-vdb +make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/DependInfo.cmake "--color=" +[ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/cg_tools.c.o -MF CMakeFiles/sra-pileup.dir/cg_tools.c.o.d -o CMakeFiles/sra-pileup.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/illumina-dump.dir/link.d "CMakeFiles/illumina-dump.dir/factory.c.o" "CMakeFiles/illumina-dump.dir/fasta_dump.c.o" "CMakeFiles/illumina-dump.dir/core.c.o" "CMakeFiles/illumina-dump.dir/illumina.c.o" -o ../../../bin/illumina-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f illumina-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv illumina-dump illumina-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3.0.9 illumina-dump.3 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build.make tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s illumina-dump.3 illumina-dump +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 54%] Built target illumina-dump +[ 54%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o +make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/depend +[ 54%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-context.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/rna_splice_log.c.o -MF CMakeFiles/sam-dump.dir/rna_splice_log.c.o.d -o CMakeFiles/sam-dump.dir/rna_splice_log.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/rna_splice_log.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-dump.dir/link.d "CMakeFiles/fastq-dump.dir/factory.c.o" "CMakeFiles/fastq-dump.dir/fasta_dump.c.o" "CMakeFiles/fastq-dump.dir/core.c.o" "CMakeFiles/fastq-dump.dir/fastq.c.o" -o ../../../bin/fastq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-dump fastq-dump.3.0.9 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build.make tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/build +[ 55%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/file-path.posix.cpp.o -MF CMakeFiles/sratools.dir/file-path.posix.cpp.o.d -o CMakeFiles/sratools.dir/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3.0.9 fastq-dump.3 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-dump.3 fastq-dump +cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 92%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o +make -f tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build.make tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 55%] Building C object tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-dump/CMakeFiles/abi-dump.dir/abi.c.o -MF CMakeFiles/abi-dump.dir/abi.c.o.d -o CMakeFiles/abi-dump.dir/abi.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-dump/abi.c +[ 55%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfRetrier.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE 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Building CXX object tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -MF CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o.d -o CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-corrupt.cpp +[ 55%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump-opts.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API 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-fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/vdb-validate.c.o -MF CMakeFiles/vdb-validate.dir/vdb-validate.c.o.d -o CMakeFiles/vdb-validate.dir/vdb-validate.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/vdb-validate.c +[ 55%] Building C object tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/prefetch\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/prefetch/CMakeFiles/prefetch.dir/PrfOutFile.c.o -MF CMakeFiles/prefetch.dir/PrfOutFile.c.o.d -o CMakeFiles/prefetch.dir/PrfOutFile.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/prefetch/PrfOutFile.c -[ 92%] Linking CXX static library ../../../lib/libncbi-ngs-c++.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -P CMakeFiles/ncbi-ngs-c++.dir/cmake_clean_target.cmake -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ncbi/ngs-c++ && /usr/bin/cmake -E cmake_link_script CMakeFiles/ncbi-ngs-c++.dir/link.txt --verbose=1 -/usr/bin/ar qc ../../../lib/libncbi-ngs-c++.a "CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" -/usr/bin/ranlib ../../../lib/libncbi-ngs-c++.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs-c++.a.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs-c++.a libncbi-ngs-c++.a.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3.0.9 libncbi-ngs-c++.a.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a.3 libncbi-ngs-c++.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs-c++.a libncbi-ngs-c++-static.a -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testAssemblyStatistics.dir/link.d CMakeFiles/testAssemblyStatistics.dir/testAssemblyStatistics.cpp.o -o ../../../test-bin/testAssemblyStatistics /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 55%] Building CXX object tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/test-tools/qa-stats/CMakeFiles/qa-stats.dir/output.cpp.o -MF CMakeFiles/qa-stats.dir/output.cpp.o.d -o CMakeFiles/qa-stats.dir/output.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/qa-stats/output.cpp +[ 55%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/arg_helper.c.o -MF CMakeFiles/fasterq-dump.dir/arg_helper.c.o.d -o CMakeFiles/fasterq-dump.dir/arg_helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/arg_helper.c +[ 55%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -MF CMakeFiles/fasterq-dump.dir/dflt_defline.c.o.d -o CMakeFiles/fasterq-dump.dir/dflt_defline.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/dflt_defline.c +[ 55%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tool_ctx.c.o +cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c +[ 55%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-coldefs.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c: In function 'tctx_extract_short_accession': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tool_ctx.c:348:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 348 | ReportBuildDate( __DATE__ ); + | ^~~~~~~~ +[ 55%] Linking C executable ../../../bin/abi-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-dump.dir/link.txt --verbose=1 +[ 56%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o +cd 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CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/SDL-response.cpp +[ 56%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/out_redir.c.o -MF CMakeFiles/sam-dump.dir/out_redir.c.o.d -o CMakeFiles/sam-dump.dir/out_redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/out_redir.c +[ 57%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-dump.dir/link.d "CMakeFiles/abi-dump.dir/factory.c.o" "CMakeFiles/abi-dump.dir/fasta_dump.c.o" "CMakeFiles/abi-dump.dir/core.c.o" "CMakeFiles/abi-dump.dir/abi.c.o" -o ../../../bin/abi-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-hdr.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-dump.3.0.9 +[ 57%] Linking C executable ../../../bin/prefetch +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/prefetch.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-dump abi-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3.0.9 abi-dump.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-dump.3 abi-dump make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 57%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/inspector.c.o -MF 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directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 92%] Built target ncbi-ngs-c++ -make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/depend -make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/depend +make -f tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/interactive2.cpp.o -MF CMakeFiles/vdb-config.dir/interactive2.cpp.o.d -o CMakeFiles/vdb-config.dir/interactive2.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/interactive2.cpp +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/prefetch.dir/link.d "CMakeFiles/prefetch.dir/kfile-no-q.c.o" CMakeFiles/prefetch.dir/PrfMain.c.o CMakeFiles/prefetch.dir/prefetch.c.o CMakeFiles/prefetch.dir/PrfRetrier.c.o CMakeFiles/prefetch.dir/PrfOutFile.c.o -o ../../../bin/prefetch ../../../ilib/libascp.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f prefetch.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv prefetch prefetch.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3.0.9 prefetch.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3 prefetch +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 prefetch-driver +[ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/report_deletes.c.o -MF CMakeFiles/sra-pileup.dir/report_deletes.c.o.d -o CMakeFiles/sra-pileup.dir/report_deletes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/report_deletes.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target prefetch +make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/DependInfo.cmake "--color=" -[ 92%] Built target testAssemblyStatistics -make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/DependInfo.cmake "--color=" +[ 58%] Linking CXX executable ../../../bin/check-corrupt +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/check-corrupt.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build +make -f tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build.make tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/DependInfo.cmake "--color=" -make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/depend +[ 58%] Building CXX object tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/driver-tool\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/driver-tool/CMakeFiles/sratools.dir/proc.posix.cpp.o -MF CMakeFiles/sratools.dir/proc.posix.cpp.o.d -o CMakeFiles/sratools.dir/proc.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/proc.posix.cpp +[ 58%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -MF CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o.d -o CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/vdb-encrypt.c +[ 58%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-decrypt.dir/shared.c.o -MF CMakeFiles/vdb-decrypt.dir/shared.c.o.d -o CMakeFiles/vdb-decrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c +[ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-hdr1.c.o -MF CMakeFiles/sam-dump.dir/sam-hdr1.c.o.d -o CMakeFiles/sam-dump.dir/sam-hdr1.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-hdr1.c +[ 58%] Building C object tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-decrypt\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-decrypt/CMakeFiles/vdb-encrypt.dir/shared.c.o -MF CMakeFiles/vdb-encrypt.dir/shared.c.o.d -o CMakeFiles/vdb-encrypt.dir/shared.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-decrypt/shared.c +[ 58%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-tools.c +[ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_regions.c.o -MF CMakeFiles/sra-pileup.dir/ref_regions.c.o.d -o CMakeFiles/sra-pileup.dir/ref_regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_regions.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/check-corrupt.dir/link.d "CMakeFiles/check-corrupt.dir/check-corrupt.cpp.o" -o ../../../bin/check-corrupt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f check-corrupt.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv check-corrupt check-corrupt.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3.0.9 check-corrupt.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s check-corrupt.3 check-corrupt +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 58%] Built target check-corrupt +make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath/CMakeFiles/srapath.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/srapath/CMakeFiles/srapath.dir/build.make tools/external/srapath/CMakeFiles/srapath.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs-shared.dir/DependInfo.cmake "--color=" +[ 58%] Linking CXX executable ../../../test-bin/Test_Drivertool_SDLResponse +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c: In function 'insp_report': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:1165:14: warning: 'res' may be used uninitialized [-Wmaybe-uninitialized] + 1165 | rc = KOutMsg( "... is %s\n", s_acc_type ); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/inspector.c:248:18: note: 'res' was declared here + 248 | const char * res; + | ^~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_SDLResponse.dir/link.txt --verbose=1 +[ 58%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/helper.c.o -MF CMakeFiles/srapath.dir/helper.c.o.d -o CMakeFiles/srapath.dir/helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/helper.c +[ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/matecache.c.o -MF CMakeFiles/sam-dump.dir/matecache.c.o.d -o CMakeFiles/sam-dump.dir/matecache.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/matecache.c +[ 58%] Linking C executable ../../../bin/vdb-decrypt +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-decrypt.dir/link.txt --verbose=1 +[ 58%] Linking C executable ../../../bin/vdb-encrypt +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-decrypt && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-encrypt.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_SDLResponse.dir/link.d "CMakeFiles/Test_Drivertool_SDLResponse.dir/test-sdl-response.cpp.o" -o ../../../test-bin/Test_Drivertool_SDLResponse +[ 58%] Linking CXX executable ../../../bin/qa-stats +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/qa-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/qa-stats.dir/link.txt --verbose=1 +[ 58%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sbuffer.c.o -MF CMakeFiles/fasterq-dump.dir/sbuffer.c.o.d -o CMakeFiles/fasterq-dump.dir/sbuffer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/sbuffer.c +[ 58%] Built target Test_Drivertool_SDLResponse +make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat/CMakeFiles/sra-stat.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/sra-stat/CMakeFiles/sra-stat.dir/build.make tools/external/sra-stat/CMakeFiles/sra-stat.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 58%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/assembly-statistics.c.o -MF CMakeFiles/sra-stat.dir/assembly-statistics.c.o.d -o CMakeFiles/sra-stat.dir/assembly-statistics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/assembly-statistics.c +make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain/CMakeFiles/rcexplain.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-encrypt.dir/link.d "CMakeFiles/vdb-encrypt.dir/vdb-encrypt.c.o" "CMakeFiles/vdb-encrypt.dir/shared.c.o" -o ../../../bin/vdb-encrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-encrypt.3.0.9 +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-decrypt.dir/link.d "CMakeFiles/vdb-decrypt.dir/vdb-decrypt.c.o" "CMakeFiles/vdb-decrypt.dir/shared.c.o" -o ../../../bin/vdb-decrypt /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-decrypt.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-encrypt vdb-encrypt.3.0.9 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 58%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/4na_ascii.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-decrypt vdb-decrypt.3.0.9 +make -f tools/external/rcexplain/CMakeFiles/rcexplain.dir/build.make tools/external/rcexplain/CMakeFiles/rcexplain.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 59%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra.c.o 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-MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/read_fkt.c.o -MF CMakeFiles/sam-dump.dir/read_fkt.c.o.d -o CMakeFiles/sam-dump.dir/read_fkt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/read_fkt.c +[ 61%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/line_iter.c.o -MF CMakeFiles/srapath.dir/line_iter.c.o.d -o CMakeFiles/srapath.dir/line_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/line_iter.c +[ 61%] Linking C executable ../../../bin/rcexplain +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/rcexplain && /usr/bin/cmake -E cmake_link_script CMakeFiles/rcexplain.dir/link.txt --verbose=1 +[ 62%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/err_msg.c.o -MF CMakeFiles/fasterq-dump.dir/err_msg.c.o.d -o CMakeFiles/fasterq-dump.dir/err_msg.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/err_msg.c +[ 62%] Building C object tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-validate\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-validate/CMakeFiles/vdb-validate.dir/check-redact.c.o -MF CMakeFiles/vdb-validate.dir/check-redact.c.o.d -o CMakeFiles/vdb-validate.dir/check-redact.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-validate/check-redact.c +[ 62%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_tools.c.o -MF CMakeFiles/fasterq-dump.dir/file_tools.c.o.d -o CMakeFiles/fasterq-dump.dir/file_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_tools.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/rcexplain.dir/link.d CMakeFiles/rcexplain.dir/rcexplain.c.o -o ../../../bin/rcexplain /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f rcexplain.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv rcexplain rcexplain.3.0.9 +[ 62%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3.0.9 rcexplain.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/ref_walker.c.o -MF CMakeFiles/sra-pileup.dir/ref_walker.c.o.d -o CMakeFiles/sra-pileup.dir/ref_walker.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/ref_walker.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s rcexplain.3 rcexplain +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 62%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o +[ 62%] Building C object tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-aligned.c.o -MF CMakeFiles/sam-dump.dir/sam-aligned.c.o.d -o CMakeFiles/sam-dump.dir/sam-aligned.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-aligned.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-stat\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-stat/CMakeFiles/sra-stat.dir/sra-stat.c.o -MF CMakeFiles/sra-stat.dir/sra-stat.c.o.d -o CMakeFiles/sra-stat.dir/sra-stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-stat/sra-stat.c +[ 62%] Built target rcexplain +[ 62%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/repository-mgr.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 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tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build.make tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 62%] Building C object tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cache-mgr\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/cache-mgr/CMakeFiles/cache-mgr.dir/cache-mgr.c.o -MF CMakeFiles/cache-mgr.dir/cache-mgr.c.o.d -o CMakeFiles/cache-mgr.dir/cache-mgr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c +[ 62%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/services.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/services.c.o -MF CMakeFiles/srapath.dir/services.c.o.d -o CMakeFiles/srapath.dir/services.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/services.c +[ 63%] Linking C executable ../../../bin/kdbmeta +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/kdbmeta && /usr/bin/cmake -E cmake_link_script CMakeFiles/kdbmeta.dir/link.txt --verbose=1 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_report': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:702:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] + 702 | octx->data = &data; + | ~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:699:17: note: 'data' declared here + 699 | report_data data; + | ^~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:696:41: note: 'octx' declared here + 696 | static rc_t perform_report( visit_ctx * octx ) + | ~~~~~~~~~~~~^~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_unlock': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:905:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] + 905 | octx->data = &data; + | ~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:902:17: note: 'data' declared here + 902 | unlock_data data; + | ^~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:899:41: note: 'octx' declared here + 899 | static rc_t perform_unlock( visit_ctx * octx ) + | ~~~~~~~~~~~~^~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c: In function 'perform_clear': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:990:16: warning: storing the address of local variable 'data' in '*octx.data' [-Wdangling-pointer=] + 990 | octx->data = &data; + | ~~~~~~~~~~~^~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:987:16: note: 'data' declared here + 987 | clear_data data; + | ^~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/cache-mgr/cache-mgr.c:984:40: note: 'octx' declared here + 984 | static rc_t perform_clear( visit_ctx * octx ) + | ~~~~~~~~~~~~^~~~ +[ 63%] Linking C executable ../../../bin/align-info +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/align-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/align-info.dir/link.txt --verbose=1 +[ 63%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/var_fmt.c.o -MF CMakeFiles/fasterq-dump.dir/var_fmt.c.o.d -o CMakeFiles/fasterq-dump.dir/var_fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/var_fmt.c +[ 63%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-unaligned.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv kdbmeta kdbmeta.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3.0.9 kdbmeta.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s kdbmeta.3 kdbmeta +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 64%] Linking C executable ../../../bin/vdb-validate +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-validate.dir/link.txt --verbose=1 +[ 64%] Built target kdbmeta +make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader/CMakeFiles/bam-load.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/align-info.dir/link.d "CMakeFiles/align-info.dir/align-info.c.o" -o ../../../bin/align-info /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f align-info.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv align-info align-info.3.0.9 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build.make tools/loaders/bam-loader/CMakeFiles/bam-load.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3.0.9 align-info.3 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s align-info.3 align-info +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 64%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam-loader.c.o -MF CMakeFiles/bam-load.dir/bam-loader.c.o.d -o CMakeFiles/bam-load.dir/bam-loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam-loader.c +[ 64%] Built target align-info +make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-validate.dir/link.d "CMakeFiles/vdb-validate.dir/main.c.o" "CMakeFiles/vdb-validate.dir/vdb-validate.c.o" "CMakeFiles/vdb-validate.dir/check-redact.c.o" -o ../../../bin/vdb-validate /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-validate.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-validate vdb-validate.3.0.9 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3.0.9 vdb-validate.3 +make -f tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build.make tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-validate.3 vdb-validate +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 64%] Built target vdb-validate +[ 64%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/spot-assembler.c.o -MF CMakeFiles/latf-load.dir/spot-assembler.c.o.d -o CMakeFiles/latf-load.dir/spot-assembler.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/spot-assembler.c +make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/sff-load.dir/DependInfo.cmake "--color=" +[ 64%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/flex_printer.c.o -MF CMakeFiles/fasterq-dump.dir/flex_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/flex_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/flex_printer.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/sff-load.dir/build.make tools/loaders/sra-load/CMakeFiles/sff-load.dir/build +[ 64%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/walk_debug.c.o -MF CMakeFiles/sra-pileup.dir/walk_debug.c.o.d -o 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-MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/pstring.c.o -MF CMakeFiles/sff-load.dir/pstring.c.o.d -o CMakeFiles/sff-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c +[ 65%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_counters.c.o -MF CMakeFiles/sra-pileup.dir/pileup_counters.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_counters.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_counters.c +[ 65%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o +[ 65%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_dir.c.o -MF CMakeFiles/fasterq-dump.dir/temp_dir.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_dir.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/common-xml.c.o -MF CMakeFiles/sff-load.dir/common-xml.c.o.d -o CMakeFiles/sff-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +[ 65%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/cgi_request.c.o -MF CMakeFiles/srapath.dir/cgi_request.c.o.d -o CMakeFiles/srapath.dir/cgi_request.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/cgi_request.c +[ 65%] Linking C executable ../../../bin/cache-mgr +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/cache-mgr && /usr/bin/cmake -E cmake_link_script CMakeFiles/cache-mgr.dir/link.txt --verbose=1 +[ 65%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-writer.c.o -MF CMakeFiles/latf-load.dir/common-writer.c.o.d -o CMakeFiles/latf-load.dir/common-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-writer.c +[ 65%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/progress_thread.c.o -MF CMakeFiles/fasterq-dump.dir/progress_thread.c.o.d -o CMakeFiles/fasterq-dump.dir/progress_thread.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/progress_thread.c +[ 65%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_index.c.o -MF CMakeFiles/sra-pileup.dir/pileup_index.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_index.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cache-mgr.dir/link.d "CMakeFiles/cache-mgr.dir/cache-mgr.c.o" -o ../../../bin/cache-mgr /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cache-mgr.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cache-mgr cache-mgr.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3.0.9 cache-mgr.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cache-mgr.3 cache-mgr +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 65%] Built target cache-mgr +make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/fastq-load.dir/DependInfo.cmake "--color=" +[ 65%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/md_flag.c.o -MF CMakeFiles/sam-dump.dir/md_flag.c.o.d -o CMakeFiles/sam-dump.dir/md_flag.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/md_flag.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build.make tools/loaders/sra-load/CMakeFiles/fastq-load.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 65%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/bam.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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-Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/pstring.c.o -MF CMakeFiles/fastq-load.dir/pstring.c.o.d -o CMakeFiles/fastq-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c +[ 66%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/cg_tools.c.o -MF CMakeFiles/sam-dump.dir/cg_tools.c.o.d -o CMakeFiles/sam-dump.dir/cg_tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/cg_tools.c +[ 66%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_indels.c.o -MF CMakeFiles/sra-pileup.dir/pileup_indels.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_indels.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_indels.c +[ 66%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -MF CMakeFiles/fasterq-dump.dir/cleanup_task.c.o.d -o CMakeFiles/fasterq-dump.dir/cleanup_task.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cleanup_task.c +[ 66%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump.c.o -MF CMakeFiles/sam-dump.dir/sam-dump.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c +[ 66%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -MF CMakeFiles/sra-pileup.dir/pileup_varcount.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_varcount.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_varcount.c +[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/common-xml.c.o -MF CMakeFiles/fastq-load.dir/common-xml.c.o.d -o CMakeFiles/fastq-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c: In function 'SAM_Dump_Main': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump.c:4387:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 4387 | ReportBuildDate( __DATE__ ); + | ^~~~~~~~ +[ 66%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/index.c.o -MF CMakeFiles/fasterq-dump.dir/index.c.o.d -o CMakeFiles/fasterq-dump.dir/index.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/index.c +[ 66%] Building C object tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o +[ 66%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/srapath\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/srapath/CMakeFiles/srapath.dir/srapath.c.o -MF CMakeFiles/srapath.dir/srapath.c.o.d -o CMakeFiles/srapath.dir/srapath.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/srapath/srapath.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/experiment-xml.c.o -MF CMakeFiles/sff-load.dir/experiment-xml.c.o.d -o CMakeFiles/sff-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c +[ 67%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/sequence-writer.c.o -MF CMakeFiles/latf-load.dir/sequence-writer.c.o.d -o CMakeFiles/latf-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/sequence-writer.c +[ 67%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_stat.c.o -MF CMakeFiles/sra-pileup.dir/pileup_stat.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_stat.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_stat.c +[ 67%] Building CXX object tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-config\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/vdb-config/CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -MF CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o.d -o CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-config/vdb-config-model.cpp +[ 67%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_writer.c +[ 68%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -MF CMakeFiles/fasterq-dump.dir/lookup_reader.c.o.d -o CMakeFiles/fasterq-dump.dir/lookup_reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/lookup_reader.c +[ 68%] Building C object tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/test-sra\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/test-sra/CMakeFiles/test-sra.dir/unix/PrintOS.c.o -MF CMakeFiles/test-sra.dir/unix/PrintOS.c.o.d -o CMakeFiles/test-sra.dir/unix/PrintOS.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/test-sra/unix/PrintOS.c +[ 68%] Linking C executable ../../../bin/srapath +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/srapath && /usr/bin/cmake -E cmake_link_script CMakeFiles/srapath.dir/link.txt --verbose=1 +[ 68%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/pileup_v2.c.o -MF CMakeFiles/sra-pileup.dir/pileup_v2.c.o.d -o CMakeFiles/sra-pileup.dir/pileup_v2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/pileup_v2.c +[ 68%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o +[ 69%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/sam-dump3.c.o -MF CMakeFiles/sam-dump.dir/sam-dump3.c.o.d -o CMakeFiles/sam-dump.dir/sam-dump3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/common-reader.c.o -MF CMakeFiles/latf-load.dir/common-reader.c.o.d -o CMakeFiles/latf-load.dir/common-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/common-reader.c +[ 69%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -MF CMakeFiles/fasterq-dump.dir/locked_file_list.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_file_list.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_file_list.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c: In function 'KMain': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sam-dump3.c:557:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 557 | ReportBuildDate( __DATE__ ); + | ^~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c: In function 'BAM_FileMakeAlignment': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1777:14: warning: '' may be used uninitialized [-Wmaybe-uninitialized] + 1777 | if (!BAM_AlignmentInit(y, rsltsize, datasize, &y->extra[numExtra])) + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/bam.c:1697:13: note: by argument 4 of type 'const void * const' to 'BAM_AlignmentInit' declared here + 1697 | static bool BAM_AlignmentInit(BAM_Alignment *const self, unsigned const maxsize, + | ^~~~~~~~~~~~~~~~~ +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srapath.dir/link.d CMakeFiles/srapath.dir/helper.c.o CMakeFiles/srapath.dir/line_iter.c.o "CMakeFiles/srapath.dir/repository-mgr.c.o" CMakeFiles/srapath.dir/services.c.o CMakeFiles/srapath.dir/cgi_request.c.o CMakeFiles/srapath.dir/srapath.c.o -o ../../../bin/srapath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srapath.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srapath srapath.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3.0.9 srapath.3 +[ 70%] Linking C executable ../../../bin/test-sra +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/test-sra && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra.dir/link.txt --verbose=1 +[ 70%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/experiment-xml.c.o -MF CMakeFiles/fastq-load.dir/experiment-xml.c.o.d -o CMakeFiles/fastq-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srapath.3 srapath +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 srapath-driver +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 70%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/run-xml.c.o -MF CMakeFiles/sff-load.dir/run-xml.c.o.d -o CMakeFiles/sff-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c +[ 70%] Building C object tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sam-dump.dir/dyn_string.c.o -MF CMakeFiles/sam-dump.dir/dyn_string.c.o.d -o CMakeFiles/sam-dump.dir/dyn_string.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/dyn_string.c +[ 70%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/locked_value.c.o -MF CMakeFiles/fasterq-dump.dir/locked_value.c.o.d -o CMakeFiles/fasterq-dump.dir/locked_value.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/locked_value.c +[ 71%] Building C object tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/sra-pileup/CMakeFiles/sra-pileup.dir/sra-pileup.c.o -MF CMakeFiles/sra-pileup.dir/sra-pileup.c.o.d -o CMakeFiles/sra-pileup.dir/sra-pileup.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c +[ 72%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o +[ 72%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/file_printer.c.o -MF CMakeFiles/fasterq-dump.dir/file_printer.c.o.d -o CMakeFiles/fasterq-dump.dir/file_printer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/file_printer.c +[ 72%] Built target srapath +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-str.c +make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/srf-load.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra.dir/link.d "CMakeFiles/test-sra.dir/test-sra.c.o" "CMakeFiles/test-sra.dir/unix/PrintOS.c.o" -o ../../../bin/test-sra ../../../ilib/libascp.a ../../../ilib/libdiagnose.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f test-sra.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv test-sra test-sra.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3.0.9 test-sra.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s test-sra.3 test-sra +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/srf-load.dir/build.make tools/loaders/sra-load/CMakeFiles/srf-load.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 72%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-reader.c.o -MF CMakeFiles/latf-load.dir/fastq-reader.c.o.d -o CMakeFiles/latf-load.dir/fastq-reader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-reader.c +[ 72%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/pstring.c.o -MF CMakeFiles/srf-load.dir/pstring.c.o.d -o CMakeFiles/srf-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c: In function 'KMain': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-pileup/sra-pileup.c:1416:22: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 1416 | ReportBuildDate( __DATE__ ); + | ^~~~~~~~ +[ 72%] Built target test-sra +make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/abi-load.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/abi-load.dir/build.make tools/loaders/sra-load/CMakeFiles/abi-load.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/pstring.c.o -MF CMakeFiles/abi-load.dir/pstring.c.o.d -o CMakeFiles/abi-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c +[ 73%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/merge_sorter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/sorter.c.o -MF CMakeFiles/fasterq-dump.dir/sorter.c.o.d -o CMakeFiles/fasterq-dump.dir/sorter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/sorter.c +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/common-xml.c.o -MF CMakeFiles/srf-load.dir/common-xml.c.o.d -o CMakeFiles/srf-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/experiment-xml.c.o -MF CMakeFiles/srf-load.dir/experiment-xml.c.o.d -o CMakeFiles/srf-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c +[ 73%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-helper.c +[ 73%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-grammar.c +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/common-xml.c.o -MF CMakeFiles/abi-load.dir/common-xml.c.o.d -o CMakeFiles/abi-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +[ 73%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -MF CMakeFiles/fasterq-dump.dir/cmn_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/cmn_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/cmn_iter.c +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader-fmt.c.o -MF CMakeFiles/sff-load.dir/loader-fmt.c.o.d -o CMakeFiles/sff-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -MF CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/raw_read_iter.c +[ 73%] Linking C executable ../../../bin/sra-pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-pileup.dir/link.txt --verbose=1 +[ 73%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/file-path.posix.cpp +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/run-xml.c.o -MF CMakeFiles/srf-load.dir/run-xml.c.o.d -o CMakeFiles/srf-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c +[ 73%] Linking CXX executable ../../../bin/sratools +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/sratools.dir/link.txt --verbose=1 +[ 73%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-misleading-indentation -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -MF CMakeFiles/latf-load.dir/zz_fastq-lex.c.o.d -o CMakeFiles/latf-load.dir/zz_fastq-lex.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/zz_fastq-lex.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-pileup.dir/link.d "CMakeFiles/sra-pileup.dir/dyn_string.c.o" "CMakeFiles/sra-pileup.dir/cmdline_cmn.c.o" "CMakeFiles/sra-pileup.dir/out_redir.c.o" "CMakeFiles/sra-pileup.dir/perf_log.c.o" "CMakeFiles/sra-pileup.dir/reref.c.o" "CMakeFiles/sra-pileup.dir/cg_tools.c.o" "CMakeFiles/sra-pileup.dir/report_deletes.c.o" "CMakeFiles/sra-pileup.dir/ref_regions.c.o" "CMakeFiles/sra-pileup.dir/4na_ascii.c.o" "CMakeFiles/sra-pileup.dir/ref_walker_0.c.o" "CMakeFiles/sra-pileup.dir/ref_walker.c.o" "CMakeFiles/sra-pileup.dir/walk_debug.c.o" "CMakeFiles/sra-pileup.dir/pileup_counters.c.o" "CMakeFiles/sra-pileup.dir/pileup_index.c.o" "CMakeFiles/sra-pileup.dir/pileup_indels.c.o" "CMakeFiles/sra-pileup.dir/pileup_varcount.c.o" "CMakeFiles/sra-pileup.dir/pileup_stat.c.o" "CMakeFiles/sra-pileup.dir/pileup_v2.c.o" "CMakeFiles/sra-pileup.dir/sra-pileup.c.o" -o ../../../bin/sra-pileup /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-pileup.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-pileup sra-pileup.3.0.9 +[ 73%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o +[ 73%] Linking C executable ../../../bin/sam-dump +[ 73%] Linking CXX executable ../../../bin/vdb-config +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/special_iter.c.o -MF CMakeFiles/fasterq-dump.dir/special_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/special_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/special_iter.c +[ 73%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-config.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-dump.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sra-writer.c.o -MF CMakeFiles/sff-load.dir/sra-writer.c.o.d -o CMakeFiles/sff-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3.0.9 sra-pileup.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-pileup.3 sra-pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sra-pileup-driver +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 73%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sam.c.o -MF CMakeFiles/bam-load.dir/sam.c.o.d -o CMakeFiles/bam-load.dir/sam.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sam.c +[ 73%] Built target sra-pileup +make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/illumina-load.dir/DependInfo.cmake "--color=" +[ 73%] Linking C executable ../../../bin/sra-stat +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-stat && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-stat.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build.make tools/loaders/sra-load/CMakeFiles/illumina-load.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-dump.dir/link.d "CMakeFiles/sam-dump.dir/inputfiles.c.o" "CMakeFiles/sam-dump.dir/perf_log.c.o" "CMakeFiles/sam-dump.dir/rna_splice_log.c.o" "CMakeFiles/sam-dump.dir/sam-dump-opts.c.o" "CMakeFiles/sam-dump.dir/out_redir.c.o" "CMakeFiles/sam-dump.dir/sam-hdr.c.o" "CMakeFiles/sam-dump.dir/sam-hdr1.c.o" "CMakeFiles/sam-dump.dir/matecache.c.o" "CMakeFiles/sam-dump.dir/read_fkt.c.o" "CMakeFiles/sam-dump.dir/sam-aligned.c.o" "CMakeFiles/sam-dump.dir/sam-unaligned.c.o" "CMakeFiles/sam-dump.dir/md_flag.c.o" "CMakeFiles/sam-dump.dir/cg_tools.c.o" "CMakeFiles/sam-dump.dir/sam-dump.c.o" "CMakeFiles/sam-dump.dir/sam-dump3.c.o" "CMakeFiles/sam-dump.dir/dyn_string.c.o" -o ../../../bin/sam-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sam-dump.3.0.9 +[ 74%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o +[ 75%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/pstring.c.o -MF CMakeFiles/illumina-load.dir/pstring.c.o.d -o CMakeFiles/illumina-load.dir/pstring.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pstring.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -MF CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fq_seq_ua_iter.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sam-dump sam-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3.0.9 sam-dump.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sam-dump.3 sam-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 sam-dump-driver +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/loader.c.o -MF CMakeFiles/sff-load.dir/loader.c.o.d -o CMakeFiles/sff-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +[ 75%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-stat.dir/link.d "CMakeFiles/sra-stat.dir/assembly-statistics.c.o" "CMakeFiles/sra-stat.dir/sra.c.o" "CMakeFiles/sra-stat.dir/sra-stat.c.o" -o ../../../bin/sra-stat ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-stat.3.0.9 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/helicos-load.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-stat sra-stat.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3.0.9 sra-stat.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-stat.3 sra-stat +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build.make tools/loaders/sra-load/CMakeFiles/helicos-load.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD 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../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-config.3.0.9 +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time 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-I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-file.c.o -MF CMakeFiles/srf-load.dir/loader-file.c.o.d -o CMakeFiles/srf-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3.0.9 vdb-config.3 +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/pstring.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk 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-D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/experiment-xml.c.o -MF CMakeFiles/abi-load.dir/experiment-xml.c.o.d -o CMakeFiles/abi-load.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong 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+make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build.make tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pstring.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. 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sratools.3 sratools +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-454.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load/CMakeFiles/cg-load.dir/DependInfo.cmake "--color=" +[ 75%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/align_iter.c.o -MF CMakeFiles/fasterq-dump.dir/align_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/align_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/align_iter.c +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/common-xml.c.o +[ 75%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o +cd 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader-fmt.c.o -MF CMakeFiles/fastq-load.dir/loader-fmt.c.o.d -o 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-I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader-fmt.c.o -MF CMakeFiles/srf-load.dir/loader-fmt.c.o.d -o CMakeFiles/srf-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c +[ 76%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-redir.c +[ 76%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/sra-writer.c.o -MF CMakeFiles/srf-load.dir/sra-writer.c.o.d -o CMakeFiles/srf-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/id2name.c.o -MF CMakeFiles/latf-load.dir/id2name.c.o.d -o CMakeFiles/latf-load.dir/id2name.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/id2name.c +[ 77%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/cg-load.c.o -MF CMakeFiles/cg-load.dir/cg-load.c.o.d -o CMakeFiles/cg-load.dir/cg-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c +[ 77%] Linking CXX executable ../../../test-bin/Test_SraInfo_Unit +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraInfo_Unit.dir/link.txt --verbose=1 +[ 77%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/common-xml.c.o -MF CMakeFiles/helicos-load.dir/common-xml.c.o.d -o CMakeFiles/helicos-load.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +[ 77%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/common-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/common-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/common-xml.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c: In function 'DB_Fini': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/cg-load.c:229:65: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 229 | if( (rc = KLoaderMeta_Write(node, p->argv0, __DATE__, "Complete Genomics", KAppVersion())) != 0 ) { + | ^~~~~~~~ +[ 77%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o +[ 77%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o +[ 77%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -MF CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o.d -o CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/simple_fasta_iter.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/sra-writer.c.o -MF CMakeFiles/fastq-load.dir/sra-writer.c.o.d -o CMakeFiles/fastq-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +[ 77%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/loader.c.o -MF CMakeFiles/srf-load.dir/loader.c.o.d -o CMakeFiles/srf-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/fastq-loader.c.o -MF CMakeFiles/latf-load.dir/fastq-loader.c.o.d -o CMakeFiles/latf-load.dir/fastq-loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/fastq-loader/fastq-loader.c +[ 77%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o +[ 78%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/sff-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/sff-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-fastq.c +[ 78%] Building C object tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/sff-load.dir/sff-fmt.c.o -MF CMakeFiles/sff-load.dir/sff-fmt.c.o.d -o CMakeFiles/sff-load.dir/sff-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sff-fmt.c +[ 78%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf.c.o -MF CMakeFiles/srf-load.dir/srf.c.o.d -o CMakeFiles/srf-load.dir/srf.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); + | ^~~~~~~~ +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_SraInfo_Unit.dir/link.d "CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o" -o ../../../test-bin/Test_SraInfo_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 79%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5dir.c +[ 79%] Built target Test_SraInfo_Unit +make -f tools/loaders/general-loader/CMakeFiles/general-loader.dir/build.make tools/loaders/general-loader/CMakeFiles/general-loader.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/CMakeFiles/general-loader.dir/DependInfo.cmake "--color=" +[ 79%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-fmt.c.o -MF CMakeFiles/srf-load.dir/srf-fmt.c.o.d -o CMakeFiles/srf-load.dir/srf-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-fmt.c +[ 79%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/experiment-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/loader.c.o -MF CMakeFiles/fastq-load.dir/loader.c.o.d -o CMakeFiles/fastq-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +[ 79%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/run-xml.c.o -MF CMakeFiles/abi-load.dir/run-xml.c.o.d -o CMakeFiles/abi-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c +[ 79%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/build-version.cpp +[ 79%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o +[ 79%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/reference-writer.c.o -MF CMakeFiles/bam-load.dir/reference-writer.c.o.d -o CMakeFiles/bam-load.dir/reference-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/reference-writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-illumina.c.o -MF CMakeFiles/fastq-load.dir/writer-illumina.c.o.d -o CMakeFiles/fastq-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); + | ^~~~~~~~ +[ 79%] Building C object tools/loaders/fastq-loader/CMakeFiles/latf-load.dir/loader-imp.c.o +[ 79%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -MF CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o.d -o CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/hdf5/hdf5file.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fastq-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 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tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/run-xml.c.o -MF CMakeFiles/helicos-load.dir/run-xml.c.o.d -o 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-view-spec.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/experiment-xml.c +[ 80%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-context.c.o -MF CMakeFiles/pacbio-load.dir/pl-context.c.o.d -o CMakeFiles/pacbio-load.dir/pl-context.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-context.c +[ 80%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-intervals.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sff-load.dir/link.d "CMakeFiles/sff-load.dir/pstring.c.o" "CMakeFiles/sff-load.dir/common-xml.c.o" "CMakeFiles/sff-load.dir/experiment-xml.c.o" "CMakeFiles/sff-load.dir/run-xml.c.o" "CMakeFiles/sff-load.dir/loader-file.c.o" "CMakeFiles/sff-load.dir/loader-fmt.c.o" "CMakeFiles/sff-load.dir/sra-writer.c.o" "CMakeFiles/sff-load.dir/loader.c.o" "CMakeFiles/sff-load.dir/writer-454.c.o" "CMakeFiles/sff-load.dir/writer-ion-torrent.c.o" "CMakeFiles/sff-load.dir/sff-fmt.c.o" -o ../../../bin/sff-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sff-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sff-load sff-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3.0.9 sff-load.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sff-load.3 sff-load +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 80%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o +[ 80%] Linking C executable ../../../bin/latf-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-file.c.o -MF CMakeFiles/abi-load.dir/loader-file.c.o.d -o CMakeFiles/abi-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/latf-load.dir/link.txt --verbose=1 +[ 80%] Building C object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/sequence-writer.c.o -MF CMakeFiles/bam-load.dir/sequence-writer.c.o.d -o CMakeFiles/bam-load.dir/sequence-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/sequence-writer.c +[ 80%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-illumina.c.o -MF CMakeFiles/srf-load.dir/writer-illumina.c.o.d -o CMakeFiles/srf-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c +[ 80%] Built target sff-load +make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/DependInfo.cmake "--color=" +[ 80%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-tools.c.o -MF CMakeFiles/pacbio-load.dir/pl-tools.c.o.d -o CMakeFiles/pacbio-load.dir/pl-tools.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-tools.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build.make tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 80%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump-inspect.c +[ 81%] Building CXX object tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/.. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/test/CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -MF CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o.d -o CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/latf-load.dir/link.d "CMakeFiles/latf-load.dir/spot-assembler.c.o" "CMakeFiles/latf-load.dir/common-writer.c.o" "CMakeFiles/latf-load.dir/sequence-writer.c.o" "CMakeFiles/latf-load.dir/common-reader.c.o" "CMakeFiles/latf-load.dir/fastq-reader.c.o" "CMakeFiles/latf-load.dir/zz_fastq-grammar.c.o" "CMakeFiles/latf-load.dir/zz_fastq-lex.c.o" "CMakeFiles/latf-load.dir/id2name.c.o" "CMakeFiles/latf-load.dir/fastq-loader.c.o" "CMakeFiles/latf-load.dir/loader-imp.c.o" -o ../../../bin/latf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f latf-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv latf-load latf-load.3.0.9 +[ 81%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-file.c.o -MF CMakeFiles/helicos-load.dir/loader-file.c.o.d -o CMakeFiles/helicos-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c +[ 81%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/protocol-parser.cpp.o -MF CMakeFiles/general-loader.dir/protocol-parser.cpp.o.d -o CMakeFiles/general-loader.dir/protocol-parser.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/protocol-parser.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s latf-load.3.0.9 latf-load.3 +[ 81%] Building CXX object test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o +[ 81%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool/../../../tools/external/driver-tool -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/driver-tool/CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -MF CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o.d -o CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/driver-tool/tool-args.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 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'/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o +[ 82%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-454.c.o -MF CMakeFiles/fastq-load.dir/writer-454.c.o.d -o CMakeFiles/fastq-load.dir/writer-454.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-454.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/run-xml.c.o -MF CMakeFiles/illumina-load.dir/run-xml.c.o.d -o CMakeFiles/illumina-load.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c +[ 82%] Built target latf-load +make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/depend +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:32: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/../database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); + | ^~~~~~~~ +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/align-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/align-info/CMakeFiles/Build-align-info.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/align-info/CMakeFiles/Build-align-info.dir/build.make test/external/align-info/CMakeFiles/Build-align-info.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/align-info/CMakeFiles/Build-align-info.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 82%] Built target Build-align-info +[ 82%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o +make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/loader-imp.c.o -MF CMakeFiles/bam-load.dir/loader-imp.c.o.d -o CMakeFiles/bam-load.dir/loader-imp.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/test-general-loader.cpp:619:86: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 619 | REQUIRE_EQ ( string ( __DATE__), GetDbMetadataAttr ( "SOFTWARE/loader", "date" ) ); + | ^ +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build.make test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/kdbmeta/CMakeFiles/Build-kdbmeta.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 82%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tbl_join.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/tbl_join.c.o -MF CMakeFiles/fasterq-dump.dir/tbl_join.c.o.d -o CMakeFiles/fasterq-dump.dir/tbl_join.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/tbl_join.c +[ 83%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/mem-bank.cpp.o -MF CMakeFiles/bam-load.dir/mem-bank.cpp.o.d -o CMakeFiles/bam-load.dir/mem-bank.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/mem-bank.cpp +[ 83%] Built target Build-kdbmeta +[ 83%] Building CXX object tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/bam-loader\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/. -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++17 -rdynamic -MD -MT tools/loaders/bam-loader/CMakeFiles/bam-load.dir/low-match-count.cpp.o -MF CMakeFiles/bam-load.dir/low-match-count.cpp.o.d -o CMakeFiles/bam-load.dir/low-match-count.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/low-match-count.cpp +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/sra-writer.c.o -MF CMakeFiles/abi-load.dir/sra-writer.c.o.d -o CMakeFiles/abi-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -MF CMakeFiles/pacbio-loadxml.dir/run-xml.c.o.d -o CMakeFiles/pacbio-loadxml.dir/run-xml.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/run-xml.c +[ 83%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-zmw.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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-ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-evidence-dnbs.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader-fmt.c.o -MF CMakeFiles/helicos-load.dir/loader-fmt.c.o.d -o CMakeFiles/helicos-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c +[ 83%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb_info.c.o -MF CMakeFiles/vdb-dump.dir/vdb_info.c.o.d -o CMakeFiles/vdb-dump.dir/vdb_info.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb_info.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-illumina.c.o -MF CMakeFiles/srf-load.dir/ztr-illumina.c.o.d -o CMakeFiles/srf-load.dir/ztr-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-illumina.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -MF CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o.d -o CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-ion-torrent.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/sra-writer.c.o -MF CMakeFiles/helicos-load.dir/sra-writer.c.o.d -o CMakeFiles/helicos-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/loader.c.o -MF CMakeFiles/helicos-load.dir/loader.c.o.d -o CMakeFiles/helicos-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +[ 83%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -MF CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o.d -o CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-basecalls_cmn.c +[ 83%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/loader.c.o -MF CMakeFiles/abi-load.dir/loader.c.o.d -o CMakeFiles/abi-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-file.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-file.c.o -MF CMakeFiles/illumina-load.dir/loader-file.c.o.d -o CMakeFiles/illumina-load.dir/loader-file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-file.c +[ 84%] Building C object tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/vdb-dump/CMakeFiles/vdb-dump.dir/vdb-dump.c.o -MF CMakeFiles/vdb-dump.dir/vdb-dump.c.o.d -o CMakeFiles/vdb-dump.dir/vdb-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/vdb-dump/vdb-dump.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); + | ^~~~~~~~ +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/fastq-load.dir/fastq-fmt.c.o -MF CMakeFiles/fastq-load.dir/fastq-fmt.c.o.d -o CMakeFiles/fastq-load.dir/fastq-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/fastq-fmt.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o +[ 84%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/writer-helicos.c.o -MF CMakeFiles/helicos-load.dir/writer-helicos.c.o.d -o CMakeFiles/helicos-load.dir/writer-helicos.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-helicos.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-sequence.c.o -MF CMakeFiles/pacbio-load.dir/pl-sequence.c.o.d -o CMakeFiles/pacbio-load.dir/pl-sequence.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-sequence.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); + | ^~~~~~~~ +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader-fmt.c.o -MF CMakeFiles/illumina-load.dir/loader-fmt.c.o.d -o CMakeFiles/illumina-load.dir/loader-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader-fmt.c +[ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/temp_registry.c.o -MF CMakeFiles/fasterq-dump.dir/temp_registry.c.o.d -o CMakeFiles/fasterq-dump.dir/temp_registry.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/temp_registry.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/helicos-load.dir/helicos-fmt.c.o -MF CMakeFiles/helicos-load.dir/helicos-fmt.c.o.d -o CMakeFiles/helicos-load.dir/helicos-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/helicos-fmt.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -MF CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o.d -o CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +[ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/copy_machine.c.o -MF CMakeFiles/fasterq-dump.dir/copy_machine.c.o.d -o CMakeFiles/fasterq-dump.dir/copy_machine.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/copy_machine.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:3453:44: warning: "/*" within comment [-Wcomment] + 3453 | int const logLevel = klogWarn; /*G.assembleWithSecondary ? klogWarn : klogErr; +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:4163:48: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 4163 | rc = KLoaderMeta_Write(node, progName, __DATE__, "BAM", KAppVersion()); + | ^~~~~~~~ +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -Wno-stringop-truncation -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/sra-writer.c.o -MF CMakeFiles/illumina-load.dir/sra-writer.c.o.d -o CMakeFiles/illumina-load.dir/sra-writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/sra-writer.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-illumina.c.o -MF CMakeFiles/srf-load.dir/srf-illumina.c.o.d -o CMakeFiles/srf-load.dir/srf-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-illumina.c +[ 84%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o +[ 84%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o +[ 84%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/multi_writer.c.o -MF CMakeFiles/fasterq-dump.dir/multi_writer.c.o.d -o CMakeFiles/fasterq-dump.dir/multi_writer.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/multi_writer.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-mappings.c.o -MF CMakeFiles/cg-load.dir/factory-mappings.c.o.d -o CMakeFiles/cg-load.dir/factory-mappings.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-consensus.c.o -MF CMakeFiles/pacbio-load.dir/pl-consensus.c.o.d -o CMakeFiles/pacbio-load.dir/pl-consensus.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-consensus.c +[ 84%] Linking C executable ../../../bin/fastq-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/fastq-load.dir/link.txt --verbose=1 +[ 84%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-reads.c.o -MF CMakeFiles/cg-load.dir/factory-reads.c.o.d -o CMakeFiles/cg-load.dir/factory-reads.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-reads.c +[ 84%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/loader.c.o -MF CMakeFiles/pacbio-loadxml.dir/loader.c.o.d -o CMakeFiles/pacbio-loadxml.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +[ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/concatenator.c.o -MF CMakeFiles/fasterq-dump.dir/concatenator.c.o.d -o CMakeFiles/fasterq-dump.dir/concatenator.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/concatenator.c +[ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -MF CMakeFiles/fasterq-dump.dir/ref_inventory.c.o.d -o CMakeFiles/fasterq-dump.dir/ref_inventory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/ref_inventory.c +[ 85%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-passes.c.o -MF CMakeFiles/pacbio-load.dir/pl-passes.c.o.d -o CMakeFiles/pacbio-load.dir/pl-passes.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-passes.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); + | ^~~~~~~~ +[ 85%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/writer-absolid.c.o -MF CMakeFiles/srf-load.dir/writer-absolid.c.o.d -o CMakeFiles/srf-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c +[ 85%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/loader.c.o -MF CMakeFiles/illumina-load.dir/loader.c.o.d -o CMakeFiles/illumina-load.dir/loader.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c +[ 85%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-absolid.c.o -MF CMakeFiles/srf-load.dir/ztr-absolid.c.o.d -o CMakeFiles/srf-load.dir/ztr-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-absolid.c +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings15_Read': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:248:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] + 248 | if( tmp[0] < 33 || tmp[0] > 126 ) { + | ~~~^~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:225:14: note: 'tmp' declared here + 225 | char tmp[2]; + | ^~~ +[ 85%] Linking C executable ../../../bin/helicos-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/helicos-load.dir/link.txt --verbose=1 +[ 85%] Building C object tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/fasterq-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/external/fasterq-dump/CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o -MF CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o.d -o CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/fasterq-dump/fasterq-dump.c +[ 85%] Building C object libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__mod__=\"libs/vdb-sqlite\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -fPIC -rdynamic -MD -MT libs/vdb-sqlite/CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -MF CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o.d -o CMakeFiles/vdb-sqlite.dir/sqlite3vdb.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3vdb.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fastq-load.dir/link.d "CMakeFiles/fastq-load.dir/pstring.c.o" "CMakeFiles/fastq-load.dir/common-xml.c.o" "CMakeFiles/fastq-load.dir/experiment-xml.c.o" "CMakeFiles/fastq-load.dir/run-xml.c.o" "CMakeFiles/fastq-load.dir/loader-file.c.o" "CMakeFiles/fastq-load.dir/loader-fmt.c.o" "CMakeFiles/fastq-load.dir/sra-writer.c.o" "CMakeFiles/fastq-load.dir/loader.c.o" "CMakeFiles/fastq-load.dir/writer-illumina.c.o" "CMakeFiles/fastq-load.dir/writer-454.c.o" "CMakeFiles/fastq-load.dir/writer-ion-torrent.c.o" "CMakeFiles/fastq-load.dir/fastq-fmt.c.o" -o ../../../bin/fastq-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fastq-load.3.0.9 +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c: In function 'WriteSoftwareVersionsMeta': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/loader.c:889:45: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 889 | rc = KLoaderMeta_Write(node, argv0, __DATE__, fe_name, fe_version); + | ^~~~~~~~ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fastq-load fastq-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3.0.9 fastq-load.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fastq-load.3 fastq-load +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 85%] Built target fastq-load +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings22_Read': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:311:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] + 311 | if( tmp[0] < 33 || tmp[0] > 126 ) { + | ~~~^~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:287:14: note: 'tmp' declared here + 287 | char tmp[2]; + | ^~~ +[ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o +[ 86%] Building C object tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-metrics.c.o -MF CMakeFiles/pacbio-load.dir/pl-metrics.c.o.d -o CMakeFiles/pacbio-load.dir/pl-metrics.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-metrics.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -MF CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o.d -o CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/pacbio-fmt.c +[ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-regions.c.o -MF CMakeFiles/pacbio-load.dir/pl-regions.c.o.d -o CMakeFiles/pacbio-load.dir/pl-regions.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-regions.c +[ 86%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/writer-absolid.c.o -MF CMakeFiles/abi-load.dir/writer-absolid.c.o.d -o CMakeFiles/abi-load.dir/writer-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-absolid.c +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/helicos-load.dir/link.d "CMakeFiles/helicos-load.dir/pstring.c.o" "CMakeFiles/helicos-load.dir/common-xml.c.o" "CMakeFiles/helicos-load.dir/experiment-xml.c.o" "CMakeFiles/helicos-load.dir/run-xml.c.o" "CMakeFiles/helicos-load.dir/loader-file.c.o" "CMakeFiles/helicos-load.dir/loader-fmt.c.o" "CMakeFiles/helicos-load.dir/sra-writer.c.o" "CMakeFiles/helicos-load.dir/loader.c.o" "CMakeFiles/helicos-load.dir/writer-helicos.c.o" "CMakeFiles/helicos-load.dir/helicos-fmt.c.o" -o ../../../bin/helicos-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f helicos-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv helicos-load helicos-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3.0.9 helicos-load.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s helicos-load.3 helicos-load +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c: In function 'CGMappings25_Read': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:382:16: warning: 'tmp' may be used uninitialized [-Wmaybe-uninitialized] + 382 | if( tmp[0] < 33 || tmp[0] > 126 ) { + | ~~~^~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-mappings.c:358:14: note: 'tmp' declared here + 358 | char tmp[2]; + | ^~~ +[ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o +[ 86%] Built target helicos-load +[ 86%] Building C object tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pacbio-load.c.o -MF CMakeFiles/pacbio-load.dir/pacbio-load.c.o.d -o CMakeFiles/pacbio-load.dir/pacbio-load.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c +make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/Build-prefetch.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/pacbio-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load -I/usr/include/hdf5/serial -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/pacbio-load/CMakeFiles/pacbio-load.dir/pl-progress.c.o -MF CMakeFiles/pacbio-load.dir/pl-progress.c.o.d -o CMakeFiles/pacbio-load.dir/pl-progress.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pl-progress.c +[ 87%] Linking C executable ../../../bin/vdb-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/prefetch/CMakeFiles/Build-prefetch.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 87%] Linking C executable ../../../bin/fasterq-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/fasterq-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/fasterq-dump.dir/link.txt --verbose=1 +[ 88%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/ztr-huffman.c.o -MF CMakeFiles/srf-load.dir/ztr-huffman.c.o.d -o CMakeFiles/srf-load.dir/ztr-huffman.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/ztr-huffman.c +[ 88%] Building C object tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o +[ 88%] Built target Build-prefetch +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/srf-load.dir/srf-absolid.c.o -MF CMakeFiles/srf-load.dir/srf-absolid.c.o.d -o CMakeFiles/srf-load.dir/srf-absolid.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/srf-absolid.c +make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/srapath/CMakeFiles/Build-srapath.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/srapath/CMakeFiles/Build-srapath.dir/build.make test/external/srapath/CMakeFiles/Build-srapath.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/srapath/CMakeFiles/Build-srapath.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c: In function 'pacbio_meta_entry': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/pacbio-load/pacbio-load.c:219:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 219 | rc = KLoaderMeta_Write( node, toolname, __DATE__, "PacBio HDF5", KAppVersion() ); + | ^~~~~~~~ +[ 88%] Built target Build-srapath +make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build.make test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/sra-pileup/CMakeFiles/Build-sra-pileup.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 88%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump.dir/link.d "CMakeFiles/vdb-dump.dir/vdb-dump-context.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-coldefs.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-tools.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-str.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-helper.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-formats.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-redir.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-fastq.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-view-spec.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump-inspect.c.o" "CMakeFiles/vdb-dump.dir/vdb_info.c.o" "CMakeFiles/vdb-dump.dir/vdb-dump.c.o" -o ../../../bin/vdb-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 88%] Built target Build-sra-pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/writer-illumina.c.o -MF CMakeFiles/illumina-load.dir/writer-illumina.c.o.d -o CMakeFiles/illumina-load.dir/writer-illumina.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/writer-illumina.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-dump vdb-dump.3.0.9 +[ 88%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3.0.9 vdb-dump.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -MF CMakeFiles/cg-load.dir/factory-tag-lfr.c.o.d -o CMakeFiles/cg-load.dir/factory-tag-lfr.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/factory-tag-lfr.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-dump.3 vdb-dump +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/fasterq-dump.dir/link.d "CMakeFiles/fasterq-dump.dir/helper.c.o" "CMakeFiles/fasterq-dump.dir/arg_helper.c.o" "CMakeFiles/fasterq-dump.dir/dflt_defline.c.o" "CMakeFiles/fasterq-dump.dir/tool_ctx.c.o" "CMakeFiles/fasterq-dump.dir/inspector.c.o" "CMakeFiles/fasterq-dump.dir/sbuffer.c.o" "CMakeFiles/fasterq-dump.dir/err_msg.c.o" "CMakeFiles/fasterq-dump.dir/file_tools.c.o" "CMakeFiles/fasterq-dump.dir/var_fmt.c.o" "CMakeFiles/fasterq-dump.dir/flex_printer.c.o" "CMakeFiles/fasterq-dump.dir/temp_dir.c.o" "CMakeFiles/fasterq-dump.dir/progress_thread.c.o" "CMakeFiles/fasterq-dump.dir/cleanup_task.c.o" "CMakeFiles/fasterq-dump.dir/index.c.o" "CMakeFiles/fasterq-dump.dir/lookup_writer.c.o" "CMakeFiles/fasterq-dump.dir/lookup_reader.c.o" "CMakeFiles/fasterq-dump.dir/locked_file_list.c.o" "CMakeFiles/fasterq-dump.dir/locked_value.c.o" "CMakeFiles/fasterq-dump.dir/file_printer.c.o" "CMakeFiles/fasterq-dump.dir/merge_sorter.c.o" "CMakeFiles/fasterq-dump.dir/sorter.c.o" "CMakeFiles/fasterq-dump.dir/cmn_iter.c.o" "CMakeFiles/fasterq-dump.dir/raw_read_iter.c.o" "CMakeFiles/fasterq-dump.dir/special_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_ua_iter.c.o" "CMakeFiles/fasterq-dump.dir/fq_seq_csra_iter.c.o" "CMakeFiles/fasterq-dump.dir/align_iter.c.o" "CMakeFiles/fasterq-dump.dir/simple_fasta_iter.c.o" "CMakeFiles/fasterq-dump.dir/db_join.c.o" "CMakeFiles/fasterq-dump.dir/tbl_join.c.o" "CMakeFiles/fasterq-dump.dir/temp_registry.c.o" "CMakeFiles/fasterq-dump.dir/copy_machine.c.o" "CMakeFiles/fasterq-dump.dir/multi_writer.c.o" "CMakeFiles/fasterq-dump.dir/concatenator.c.o" "CMakeFiles/fasterq-dump.dir/ref_inventory.c.o" "CMakeFiles/fasterq-dump.dir/fasterq-dump.c.o" -o ../../../bin/fasterq-dump /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f fasterq-dump.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 vdb-dump-driver +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv fasterq-dump fasterq-dump.3.0.9 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3.0.9 fasterq-dump.3 +[ 88%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_3.c.o -MF CMakeFiles/cg-load.dir/f1_3.c.o.d -o CMakeFiles/cg-load.dir/f1_3.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_3.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s fasterq-dump.3 fasterq-dump +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 fasterq-dump-driver +[ 88%] Built target vdb-dump +make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/depend +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/DependInfo.cmake "--color=" +[ 88%] Built target fasterq-dump +make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build.make test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/sra-stat/CMakeFiles/Build-sra-stat.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build +[ 89%] Building C object tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/abi-load.dir/absolid-fmt.c.o -MF CMakeFiles/abi-load.dir/absolid-fmt.c.o.d -o CMakeFiles/abi-load.dir/absolid-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/absolid-fmt.c +[ 90%] Building C object tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/sra-load/CMakeFiles/illumina-load.dir/illumina-fmt.c.o -MF CMakeFiles/illumina-load.dir/illumina-fmt.c.o.d -o CMakeFiles/illumina-load.dir/illumina-fmt.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/sra-load/illumina-fmt.c +[ 90%] Built target Build-sra-stat +[ 90%] Built target Build-vdb-config +make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/DependInfo.cmake "--color=" +make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/DependInfo.cmake "--color=" +[ 90%] Linking C executable ../../../bin/pacbio-loadxml +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-loadxml.dir/link.txt --verbose=1 +[ 90%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_5.c.o -MF CMakeFiles/cg-load.dir/f1_5.c.o.d -o CMakeFiles/cg-load.dir/f1_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_5.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build.make test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f1_7.c.o -MF CMakeFiles/cg-load.dir/f1_7.c.o.d -o CMakeFiles/cg-load.dir/f1_7.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f1_7.c +make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info/CMakeFiles/Build-sra-info.dir/DependInfo.cmake "--color=" +[ 90%] Built target Build-vdb-validate +make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/depend +[ 90%] Building CXX object test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/external/vdb-dump\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/vdb-dump/CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -MF CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o.d -o CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-dump/makedb.cpp +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/sra-info/CMakeFiles/Build-sra-info.dir/build.make test/external/sra-info/CMakeFiles/Build-sra-info.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/sra-info/CMakeFiles/Build-sra-info.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 90%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/database-loader.cpp.o -MF CMakeFiles/general-loader.dir/database-loader.cpp.o.d -o CMakeFiles/general-loader.dir/database-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build.make test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build +[ 90%] Built target Build-sra-info +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/loaders/fastq-loader/CMakeFiles/Build-latf-load.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/DependInfo.cmake "--color=" +[ 90%] Built target Build-latf-load +make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/DependInfo.cmake "--color=" +make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/DependInfo.cmake "--color=" +[ 90%] Linking C executable ../../../bin/pacbio-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/pacbio-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/pacbio-load.dir/link.txt --verbose=1 +[ 91%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build.make test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_0.c.o -MF CMakeFiles/cg-load.dir/f2_0.c.o.d -o CMakeFiles/cg-load.dir/f2_0.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_0.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 91%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_2.c.o -MF CMakeFiles/cg-load.dir/f2_2.c.o.d -o CMakeFiles/cg-load.dir/f2_2.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_2.c +make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/build +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-loadxml.dir/link.d "CMakeFiles/pacbio-loadxml.dir/pstring.c.o" "CMakeFiles/pacbio-loadxml.dir/common-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/experiment-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/run-xml.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-file.c.o" "CMakeFiles/pacbio-loadxml.dir/loader-fmt.c.o" "CMakeFiles/pacbio-loadxml.dir/sra-writer.c.o" "CMakeFiles/pacbio-loadxml.dir/loader.c.o" "CMakeFiles/pacbio-loadxml.dir/pacbio-fmt.c.o" -o ../../../bin/pacbio-loadxml ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-loadxml.3.0.9 +[ 91%] Building CXX object test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -MF CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o.d -o CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-id2name.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-loadxml pacbio-loadxml.3.0.9 +[ 91%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq.cpp +[ 91%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_4.c.o -MF CMakeFiles/cg-load.dir/f2_4.c.o.d -o CMakeFiles/cg-load.dir/f2_4.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_4.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3.0.9 pacbio-loadxml.3 +[ 92%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/wb-test-fastq-parse.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-loadxml.3 pacbio-loadxml +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/database-loader.cpp:699:90: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] + 699 | rc = KLoaderMeta_WriteWithVersion ( node, m_programName.c_str(), __DATE__, KAppVersion(), m_softwareName.c_str(), m_softwareVersion ); + | ^~~~~~~~ +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 92%] Linking C executable ../../../bin/srf-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/srf-load.dir/link.txt --verbose=1 +[ 92%] Built target pacbio-loadxml +make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build.make test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/f2_5.c.o -MF CMakeFiles/cg-load.dir/f2_5.c.o.d -o CMakeFiles/cg-load.dir/f2_5.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/f2_5.c +[ 92%] Building CXX object test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/loaders/fastq-loader/CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -MF CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o.d -o CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/test-fastq-loader.cpp +[ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file.c.o -MF CMakeFiles/cg-load.dir/file.c.o.d -o CMakeFiles/cg-load.dir/file.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file.c +[ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/file-version-factory.c.o -MF CMakeFiles/cg-load.dir/file-version-factory.c.o.d -o CMakeFiles/cg-load.dir/file-version-factory.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/file-version-factory.c +make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar/CMakeFiles/Build-kar.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/loaders/kar/CMakeFiles/Build-kar.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/formats.c.o -MF CMakeFiles/cg-load.dir/formats.c.o.d -o CMakeFiles/cg-load.dir/formats.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/formats.c +[ 92%] Linking C executable ../../../bin/abi-load +[ 92%] Built target Build-kar +make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/abi-load.dir/link.txt --verbose=1 +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align-cache/CMakeFiles/Build-align-cache.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/srf-load.dir/link.d "CMakeFiles/srf-load.dir/pstring.c.o" "CMakeFiles/srf-load.dir/common-xml.c.o" "CMakeFiles/srf-load.dir/experiment-xml.c.o" "CMakeFiles/srf-load.dir/run-xml.c.o" "CMakeFiles/srf-load.dir/loader-file.c.o" "CMakeFiles/srf-load.dir/loader-fmt.c.o" "CMakeFiles/srf-load.dir/sra-writer.c.o" "CMakeFiles/srf-load.dir/loader.c.o" "CMakeFiles/srf-load.dir/srf.c.o" "CMakeFiles/srf-load.dir/srf-fmt.c.o" "CMakeFiles/srf-load.dir/writer-illumina.c.o" "CMakeFiles/srf-load.dir/ztr-illumina.c.o" "CMakeFiles/srf-load.dir/srf-illumina.c.o" "CMakeFiles/srf-load.dir/writer-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-absolid.c.o" "CMakeFiles/srf-load.dir/ztr-huffman.c.o" "CMakeFiles/srf-load.dir/srf-absolid.c.o" -o ../../../bin/srf-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f srf-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv srf-load srf-load.3.0.9 +[ 92%] Linking C executable ../../../bin/illumina-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3.0.9 srf-load.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/sra-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/illumina-load.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 92%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o +make -f test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build.make test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-algn.c.o -MF CMakeFiles/cg-load.dir/writer-algn.c.o.d -o CMakeFiles/cg-load.dir/writer-algn.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-algn.c +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/internal/align-cache/CMakeFiles/Build-align-cache.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s srf-load.3 srf-load +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pacbio-load.dir/link.d "CMakeFiles/pacbio-load.dir/hdf5/hdf5arrayfile.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5dir.c.o" "CMakeFiles/pacbio-load.dir/hdf5/hdf5file.c.o" "CMakeFiles/pacbio-load.dir/pl-context.c.o" "CMakeFiles/pacbio-load.dir/pl-tools.c.o" "CMakeFiles/pacbio-load.dir/pl-zmw.c.o" "CMakeFiles/pacbio-load.dir/pl-basecalls_cmn.c.o" "CMakeFiles/pacbio-load.dir/pl-sequence.c.o" "CMakeFiles/pacbio-load.dir/pl-consensus.c.o" "CMakeFiles/pacbio-load.dir/pl-passes.c.o" "CMakeFiles/pacbio-load.dir/pl-metrics.c.o" "CMakeFiles/pacbio-load.dir/pl-regions.c.o" "CMakeFiles/pacbio-load.dir/pl-progress.c.o" "CMakeFiles/pacbio-load.dir/pacbio-load.c.o" -o ../../../bin/pacbio-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libpthread.a /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.a -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pacbio-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pacbio-load pacbio-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3.0.9 pacbio-load.3 +[ 93%] Building CXX object tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/loaders/general-loader/CMakeFiles/general-loader.dir/main.cpp.o -MF CMakeFiles/general-loader.dir/main.cpp.o.d -o CMakeFiles/general-loader.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/main.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pacbio-load.3 pacbio-load +[ 93%] Built target Build-align-cache +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 93%] Built target srf-load +make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/DependInfo.cmake "--color=" +[ 93%] Built target pacbio-load +make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/DependInfo.cmake "--color=" +[ 93%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-dnbs.c +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build.make test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/internal/make-read-filter/CMakeFiles/Build-make-read-filter.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 92%] Linking CXX shared library ../../lib/libngs-c++.so -[ 92%] Linking CXX static library ../../lib/libngs-c++.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++-shared.dir/link.txt --verbose=1 +[ 93%] Built target Build-make-read-filter +make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/DependInfo.cmake "--color=" +[ 93%] Linking CXX static library ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -P CMakeFiles/ngs-c++.dir/cmake_clean_target.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build.make ngs/ngs-sdk/CMakeFiles/ngs-c++-shared.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 93%] Linking CXX shared library ../../lib/libngs-c++.so +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/abi-load.dir/link.d "CMakeFiles/abi-load.dir/pstring.c.o" "CMakeFiles/abi-load.dir/common-xml.c.o" "CMakeFiles/abi-load.dir/experiment-xml.c.o" "CMakeFiles/abi-load.dir/run-xml.c.o" "CMakeFiles/abi-load.dir/loader-file.c.o" "CMakeFiles/abi-load.dir/loader-fmt.c.o" "CMakeFiles/abi-load.dir/sra-writer.c.o" "CMakeFiles/abi-load.dir/loader.c.o" "CMakeFiles/abi-load.dir/writer-absolid.c.o" "CMakeFiles/abi-load.dir/absolid-fmt.c.o" -o ../../../bin/abi-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libkxml.a /usr/lib/x86_64-linux-gnu/libxml2.so +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++-shared.dir/link.txt --verbose=1 +make -f ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/build.make ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/depend +[ 94%] Building C object tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/CMakeFiles/ncbi-ngs.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/cg-load\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/loaders/cg-load/CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -MF CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o.d -o CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/cg-load/writer-evidence-intervals.c +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f abi-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-c++.dir/link.txt --verbose=1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv abi-load abi-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s abi-load.3.0.9 abi-load.3 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f 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"language/python/CMakeFiles/ngs-bind-python.dir/py_Refcount.cpp.o" "language/python/CMakeFiles/ngs-bind-python.dir/py_StringItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadCollectionItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReferenceSequenceItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_PileupEventItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_AlignmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadGroupItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadIteratorItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_ReadItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_FragmentItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_StatisticsItf.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Package.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_String.cpp.o" "language/java/CMakeFiles/ngs-bind-java.dir/jni_Refcount.cpp.o" "language/java/CMake[ 95%] Linking CXX executable ../../../test-bin/Test_Drivertool_RunSource +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_RunSource.dir/link.txt --verbose=1 +ir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libngs-c++.a.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libngs-c++.a libngs-c++.a.3.0.9 @@ -5988,289 +6117,301 @@ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a.3 libngs-c++.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libngs-c++.a libngs-c++-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target ngs-c++ +[ 95%] Linking CXX executable ../../../test-bin/vdb-dump-makedb +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-dump-makedb.dir/link.txt --verbose=1 +/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libngs-c++.so.3.0.9 ../../lib/libngs-c++.so.3 ../../lib/libngs-c++.so +[ 95%] Built target ngs-c++ make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/depend -make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/DependInfo.cmake "--color=" +make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/DependInfo.cmake "--color=" -/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libngs-c++.so.3.0.9 ../../lib/libngs-c++.so.3 ../../lib/libngs-c++.so +make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/DependInfo.cmake "--color=" +[ 95%] Linking C executable ../../../bin/cg-load +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/cg-load && /usr/bin/cmake -E cmake_link_script CMakeFiles/cg-load.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build +make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build.make tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' ction.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/bin/ranlib ../../lib/libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && rm -f libncbi-ngs.a.3.0.9 -[ 93%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -MF CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o.d -o CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/ngs-pileup.cpp +[ 95%] Building CXX object test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -MF CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o.d -o CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/pileup_estimator.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && mv libncbi-ngs.a libncbi-ngs.a.3.0.9 +[ 95%] Building CXX object test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3.0.9 libncbi-ngs.a.3 -[ 93%] Building CXX object test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3 libncbi-ngs.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs-pileup/CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -MF CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o.d -o CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup/test-ngs-pileup.cpp +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a.3 libncbi-ngs.a +[ 95%] Built target ngs-c++-shared +[ 95%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3SelectNew': +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -MF CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o.d -o CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/ngs-pileup.cpp cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib && ln -f -s libncbi-ngs.a libncbi-ngs-static.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target ncbi-ngs -make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/DependInfo.cmake "--color=" -[ 93%] Built target ngs-c++-shared +[ 95%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -MF CMakeFiles/ngs-pileup.dir/main.cpp.o.d -o CMakeFiles/ngs-pileup.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/main.cpp +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115649:10: warning: function may return address of local variable [-Wreturn-local-addr] +115649 | return pNew; + | ^~~~ +[ 95%] Built target ncbi-ngs make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/DependInfo.cmake "--color=" +/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/cg-load.dir/link.d "CMakeFiles/cg-load.dir/cg-load.c.o" "CMakeFiles/cg-load.dir/factory-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/factory-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/factory-mappings.c.o" "CMakeFiles/cg-load.dir/factory-reads.c.o" "CMakeFiles/cg-load.dir/factory-tag-lfr.c.o" "CMakeFiles/cg-load.dir/f1_3.c.o" "CMakeFiles/cg-load.dir/f1_5.c.o" "CMakeFiles/cg-load.dir/f1_7.c.o" "CMakeFiles/cg-load.dir/f2_0.c.o" "CMakeFiles/cg-load.dir/f2_2.c.o" "CMakeFiles/cg-load.dir/f2_4.c.o" "CMakeFiles/cg-load.dir/f2_5.c.o" "CMakeFiles/cg-load.dir/file.c.o" "CMakeFiles/cg-load.dir/file-version-factory.c.o" "CMakeFiles/cg-load.dir/formats.c.o" "CMakeFiles/cg-load.dir/writer-algn.c.o" "CMakeFiles/cg-load.dir/writer-evidence-dnbs.c.o" "CMakeFiles/cg-load.dir/writer-evidence-intervals.c.o" "CMakeFiles/cg-load.dir/writer-seq.c.o" -o ../../../bin/cg-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f cg-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv cg-load cg-load.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3.0.9 cg-load.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s cg-load.3 cg-load +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115609:10: note: declared here +115609 | Select standin; + | ^~~~~~~ make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build.make test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ngs-pileup\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ngs-pileup/CMakeFiles/ngs-pileup.dir/main.cpp.o -MF CMakeFiles/ngs-pileup.dir/main.cpp.o.d -o CMakeFiles/ngs-pileup.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ngs-pileup/main.cpp -[ 93%] Linking CXX executable ../../../test-bin/Test_KFF -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/copycat && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_KFF.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/build -[ 93%] Building CXX object test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/internal/align\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/usr/include/ncbi-vdb/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/../ncbi-vdb/interfaces/ext -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/internal/align/CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -MF CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o.d -o CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align/pileup_estimator.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -MF CMakeFiles/FragTest.dir/FragTest.cpp.o.d -o CMakeFiles/FragTest.dir/FragTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/FragTest.cpp -Files/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libncbi-ngs.so.3.0.9 ../../lib/libncbi-ngs.so.3 ../../lib/libncbi-ngs.so -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 93%] Built target ncbi-ngs-shared +[ 95%] Built target cg-load make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/DependInfo.cmake "--color=" -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp: In function 'void ncbi::runTest(int, const char**, const char*, const char*)': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:271:20: warning: 'gw' may be used uninitialized [-Wmaybe-uninitialized] - 271 | delete gw; - | ^~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/general-writer/test/test-general-writer.cpp:217:24: note: 'gw' was declared here - 217 | GeneralWriter *gw; - | ^~ +[ 95%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/FragTest.dir/FragTest.cpp.o -MF CMakeFiles/FragTest.dir/FragTest.cpp.o.d -o CMakeFiles/FragTest.dir/FragTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/FragTest.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-dump-makedb.dir/link.d "CMakeFiles/vdb-dump-makedb.dir/makedb.cpp.o" -o ../../../test-bin/vdb-dump-makedb /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_KFF.dir/link.d CMakeFiles/Test_KFF.dir/kfftest.cpp.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffext.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffkey.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/fileformat.c.o CMakeFiles/Test_KFF.dir/__/__/__/tools/internal/copycat/kff/ffmagic.c.o -o ../../../test-bin/Test_KFF /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -lmagic -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o +Files/ngs-bind-java.dir/jni_ErrorMsg.cpp.o" "../ncbi/ngs/CMakeFiles/ngs.dir/NCBI-NGS.c.o" ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReferenceWindow.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/CSRA1_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/EBI_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_DB_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadGroupInfo.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/SRA_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Statistics.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadCollection.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_PileupEvent.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Pileup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReadGroup.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Alignment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Reference.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceSequence.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Read.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Fragment.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Cursor.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Refcount.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_String.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_Id.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ErrBlock.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_FragmentBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlob.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/NGS_ReferenceBlobIterator.c.o ../ncbi/ngs/CMakeFiles/ngs.dir/VByteBlob.c.o "../ncbi/ngs-c++/CMakeFiles/ncbi-ngs-c++.dir/NCBI-NGS.cpp.o" "../ncbi/ngs-py/CMakeFiles/ngs-py.dir/py_Manager.c.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadCollection.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceSequence.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReferenceIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Reference.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Pileup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEventIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/PileupEvent.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/AlignmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Alignment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroupIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadGroup.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/ReadIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Read.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/FragmentIterator.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Fragment.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/Statistics.cpp.o" "language/c++/CMakeFiles/ngs-bind-c++.dir/StringRef.cpp.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_Manager.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_String.c.o" "../ncbi/ngs-jni/CMakeFiles/ngs-jni.dir/jni_ErrorMsg.c.o" /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk && /usr/bin/cmake -E cmake_symlink_library ../../lib/libncbi-ngs.so.3.0.9 ../../lib/libncbi-ngs.so.3 ../../lib/libncbi-ngs.so +[ 95%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignTest.dir/AlignTest.cpp.o -MF CMakeFiles/AlignTest.dir/AlignTest.cpp.o.d -o CMakeFiles/AlignTest.dir/AlignTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignTest.cpp -[ 93%] Built target Test_KFF +[ 95%] Built target vdb-dump-makedb +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/depend +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_RunSource.dir/link.d "CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" -o ../../../test-bin/Test_Drivertool_RunSource /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target ncbi-ngs-shared +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/DependInfo.cmake "--color=" -[ 93%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -MF CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o.d -o CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignSliceTest.cpp -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 95%] Built target Test_Drivertool_RunSource make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/DependInfo.cmake "--color=" -[ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o -MF CMakeFiles/RefTest.dir/RefTest.cpp.o.d -o CMakeFiles/RefTest.dir/RefTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/RefTest.cpp -[ 94%] Linking CXX executable ../../../test-bin/SlowTest_FastqLoader_id2name -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.txt --verbose=1 -[ 94%] Linking CXX executable ../../../test-bin/Test_LOADERFILE -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADERFILE.dir/link.txt --verbose=1 -[ 94%] Linking CXX executable ../../../test-bin/Test_Drivertool_ToolArgs -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_ToolArgs.dir/link.txt --verbose=1 -[ 94%] Linking CXX executable ../../../test-bin/Test_VdbValidate_Unit -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_VdbValidate_Unit.dir/link.txt --verbose=1 -[ 94%] Linking CXX executable ../../../test-bin/test-general-writer -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-writer.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.d "CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o" -o ../../../test-bin/SlowTest_FastqLoader_id2name ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target SlowTest_FastqLoader_id2name make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/depend +[ 95%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -MF CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o.d -o CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/AlignSliceTest.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build +make -f ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADERFILE.dir/link.d "CMakeFiles/Test_LOADERFILE.dir/test-loaderfile.cpp.o" -o ../../../test-bin/Test_LOADERFILE ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target Test_LOADERFILE -[ 94%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/build +make -f ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build.make ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/PileupTest.dir/PileupTest.cpp.o -MF CMakeFiles/PileupTest.dir/PileupTest.cpp.o.d -o CMakeFiles/PileupTest.dir/PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/PileupTest.cpp +[ 96%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -MF CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o.d -o CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/DumpReferenceFASTA.cpp +[ 96%] Building CXX object ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/RefTest.dir/RefTest.cpp.o -MF CMakeFiles/RefTest.dir/RefTest.cpp.o.d -o CMakeFiles/RefTest.dir/RefTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/RefTest.cpp +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp: In constructor 'TestSource::Buffer::Buffer(const std::string&, uint32_t, uint32_t, bool)': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/testsource.cpp:52:13: warning: 'char* __builtin_strncpy(char*, const char*, long unsigned int)' specified bound 8 equals destination size [-Wstringop-truncation] + 52 | strncpy ( m_header . dad . signature, p_signature . c_str(), sizeof m_header . dad . signature ); + | ^ +[ 96%] Linking CXX executable ../../../test-bin/RefTest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/RefTest.dir/link.txt --verbose=1 +[ 96%] Linking CXX executable ../../../test-bin/FragTest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragTest.dir/link.txt --verbose=1 +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:113: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:214:7: warning: 'sha1_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] + 214 | class sha1_filter : public sha_filter + | ^~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:218:7: warning: 'sha224_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] + 218 | class sha224_filter : public sha_filter + | ^~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/hashing.hpp:222:7: warning: 'sha256_filter' has a base 'sha_filter' which has internal linkage [-Wsubobject-linkage] + 222 | class sha256_filter : public sha_filter + | ^~~~~~~~~~~~~ +[ 96%] Linking CXX executable ../../../test-bin/AlignTest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignTest.dir/link.txt --verbose=1 +[ 96%] Linking CXX executable ../../../test-bin/DumpReferenceFASTA +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/DumpReferenceFASTA.dir/link.txt --verbose=1 make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/depend +[ 96%] Linking CXX executable ../../../test-bin/AlignSliceTest make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignSliceTest.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/RefTest.dir/link.d CMakeFiles/RefTest.dir/RefTest.cpp.o -o ../../../test-bin/RefTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o -MF CMakeFiles/test-ngs.dir/ngstest.cpp.o.d -o CMakeFiles/test-ngs.dir/ngstest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest.cpp +[ 96%] Built target RefTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT ngs/ngs-sdk/examples/CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -MF CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o.d -o CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk/examples/DumpReferenceFASTA.cpp make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_VdbValidate_Unit.dir/link.d "CMakeFiles/Test_VdbValidate_Unit.dir/test-vdb-validate.cpp.o" -o ../../../test-bin/Test_VdbValidate_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_ToolArgs.dir/link.d "CMakeFiles/Test_Drivertool_ToolArgs.dir/test-tool-args.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_ToolArgs.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" -o ../../../test-bin/Test_Drivertool_ToolArgs /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Linking CXX executable ../../../test-bin/PileupTest +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/PileupTest.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/FragTest.dir/link.d CMakeFiles/FragTest.dir/FragTest.cpp.o -o ../../../test-bin/FragTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 94%] Built target Test_Drivertool_ToolArgs -[ 94%] Built target Test_VdbValidate_Unit +[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -MF CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o.d -o CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sra.cpp +[ 96%] Built target FragTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -MF CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o.d -o CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sradb.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignTest.dir/link.d CMakeFiles/AlignTest.dir/AlignTest.cpp.o -o ../../../test-bin/AlignTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Built target AlignTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/depend -[ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs.dir/ngstest.cpp.o -MF CMakeFiles/test-ngs.dir/ngstest.cpp.o.d -o CMakeFiles/test-ngs.dir/ngstest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest.cpp -[ 94%] Linking CXX executable ../../../test-bin/FragTest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/FragTest.dir/link.txt --verbose=1 -[ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -MF CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o.d -o CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sra.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-writer.dir/link.d "CMakeFiles/test-general-writer.dir/test-general-writer.cpp.o" -o ../../../test-bin/test-general-writer ../../../ilib/libgeneral-writer.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignSliceTest.dir/link.d CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -o ../../../test-bin/AlignSliceTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Linking CXX executable ../../../bin/ngs-pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-pileup.dir/link.txt --verbose=1 +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/DumpReferenceFASTA.dir/link.d CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -o ../../../test-bin/DumpReferenceFASTA ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -[ 94%] Built target test-general-writer -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -MF CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o.d -o CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_sradb.cpp -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/depend -[ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/build +In file included from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/fmt.h:24, + from /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/loader-imp.c:100: +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = fmt::v8::basic_string_view; typename std::enable_if::type = 0]': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {fmt::v8::basic_string_view, char [3]}]' + 1692 | data_{detail::make_arg< + | ~~~~~~~~~~~~~~~~~ + 1693 | is_packed, Context, + | ~~~~~~~~~~~~~~~~~~~ + 1694 | detail::mapped_type_constant::value>(args)...} { + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1710:18: required from 'OutputIt fmt::v8::format_to(OutputIt, format_string, T&& ...) [with OutputIt = appender; T = {basic_string_view&, const char (&)[3]}; typename std::enable_if::value, int>::type = 0; format_string = basic_format_string&, const char (&)[3]>]' + 1710 | return {args...}; + | ^ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/format-inl.h:74:14: required from here + 74 | format_to(it, FMT_STRING("{}{}"), message, SEP); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:2915:52: in 'constexpr' expansion of 'fmt::v8::make_format_args<>(((const fmt::v8::basic_string_view&)args#0), args#1)' +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:15: warning: possibly dangling reference to a temporary [-Wdangling-reference] + 1566 | const auto& arg = arg_mapper().map(val); + | ^~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' + 1566 | const auto& arg = arg_mapper().map(val); + | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -MF CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o.d -o CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1.cpp +[ 96%] Built target AlignSliceTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/depend -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/DependInfo.cmake "--color=" -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -MF CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o.d -o CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1.cpp +[ 96%] Built target DumpReferenceFASTA make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/build +[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -MF CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o.d -o CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_readcollection.cpp -[ 94%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -MF CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o.d -o CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -MF CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o.d -o CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_readcollection.cpp +[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -MF CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o.d -o CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 94%] Linking CXX executable ../../../test-bin/Test_LOADER -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_LOADER.dir/link.txt --verbose=1 -[ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -MF CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o.d -o CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_pileup.cpp -[ 95%] Linking CXX executable ../../../test-bin/AlignTest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignTest.dir/link.txt --verbose=1 -[ 95%] Linking CXX executable ../../../test-bin/RefTest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/RefTest.dir/link.txt --verbose=1 -Note: ngs_test_lib_load.java uses unchecked or unsafe operations. -Note: Recompile with -Xlint:unchecked for details. -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/FragTest.dir/link.d CMakeFiles/FragTest.dir/FragTest.cpp.o -o ../../../test-bin/FragTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/PileupTest.dir/link.d CMakeFiles/PileupTest.dir/PileupTest.cpp.o -o ../../../test-bin/PileupTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 95%] Built target FragTest +[ 97%] Built target PileupTest make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_LOADER.dir/link.d CMakeFiles/Test_LOADER.dir/loadertest.cpp.o -o ../../../test-bin/Test_LOADER ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +[ 97%] Linking CXX executable ../../../bin/general-loader +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/general-loader.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir/java_compiled_test-ngs-java -[ 95%] Built target Test_LOADER +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -MF CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o.d -o CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_reference.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-pileup.dir/link.d "CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o" "CMakeFiles/ngs-pileup.dir/main.cpp.o" -o ../../../bin/ngs-pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ngs-pileup.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ngs-pileup ngs-pileup.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3.0.9 ngs-pileup.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3 ngs-pileup +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target ngs-pileup make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/DependInfo.cmake "--color=" -[ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -MF CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o.d -o CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_reference.cpp -[ 95%] Linking CXX executable ../../../test-bin/AlignSliceTest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/AlignSliceTest.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 95%] Linking CXX executable ../../../test-bin/PileupTest -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/PileupTest.dir/link.txt --verbose=1 -[ 95%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -[ 95%] Generating CMakeFiles/test-ngs-java.dir/java_class_filelist +[ 97%] Linking CXX executable ../../../test-bin/test-ngs +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs.dir/link.txt --verbose=1 +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o +[ 97%] Linking CXX executable ../../../test-bin/SlowTest_FastqLoader_id2name cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -MF CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o.d -o CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_fragmentblob.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/ngs-java && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/general-loader.dir/link.d "CMakeFiles/general-loader.dir/general-loader.cpp.o" "CMakeFiles/general-loader.dir/protocol-parser.cpp.o" "CMakeFiles/general-loader.dir/database-loader.cpp.o" "CMakeFiles/general-loader.dir/main.cpp.o" -o ../../../bin/general-loader ../../../ilib/libgeneral-writer.a ../../../ilib/libloader.a -lkapp ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f general-loader.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv general-loader general-loader.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3.0.9 general-loader.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s general-loader.3 general-loader +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target general-loader make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/DependInfo.cmake "--color=" -[ 96%] Creating Java archive test-ngs-java.jar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/test-ngs-java.jar @java_class_filelist -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignTest.dir/link.d CMakeFiles/AlignTest.dir/AlignTest.cpp.o -o ../../../test-bin/AlignTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/RefTest.dir/link.d CMakeFiles/RefTest.dir/RefTest.cpp.o -o ../../../test-bin/RefTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Linking CXX executable ../../../test-bin/DumpReferenceFASTA -[ 96%] Built target RefTest -make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-sdk/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/DumpReferenceFASTA.dir/link.txt --verbose=1 -[ 96%] Linking CXX executable ../../../test-bin/test-ngs make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs.dir/link.txt --verbose=1 -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -[ 96%] Built target AlignTest -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/depend +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -MF CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o.d -o CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_referenceblob.cpp -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -MF CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o.d -o CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_byteblob.cpp -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -MF CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o.d -o CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRAtest.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/AlignSliceTest.dir/link.d CMakeFiles/AlignSliceTest.dir/AlignSliceTest.cpp.o -o ../../../test-bin/AlignSliceTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target AlignSliceTest -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/PileupTest.dir/link.d CMakeFiles/PileupTest.dir/PileupTest.cpp.o -o ../../../test-bin/PileupTest ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_FastqLoader_id2name.dir/link.d "CMakeFiles/SlowTest_FastqLoader_id2name.dir/test-id2name.cpp.o" -o ../../../test-bin/SlowTest_FastqLoader_id2name ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -MF CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o.d -o CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRADBtest.cpp -[ 96%] Built target PileupTest -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/depend +[ 97%] Built target SlowTest_FastqLoader_id2name +make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/DependInfo.cmake "--color=" /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceWindow_Slice_Filtered::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:591:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 591 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/DumpReferenceFASTA.dir/link.d CMakeFiles/DumpReferenceFASTA.dir/DumpReferenceFASTA.cpp.o -o ../../../test-bin/DumpReferenceFASTA ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_Wraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:669:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 669 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) @@ -6279,109 +6420,32 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:696:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 696 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs.dir/link.d "CMakeFiles/test-ngs.dir/ngstest.cpp.o" -o ../../../test-bin/test-ngs -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:719:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 719 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/build /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp: In member function 'void CSRA1_NGS_ReferenceGetFilteredAlignmentSlice_NoWraparound_StartInWindow::Instance::test_method()': /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_csra1_refwin.cpp:740:196: note: '#pragma message: filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags.' 740 | #pragma message ( "filtering did not work prior to today's changes. I have set filter bits to allow this test to pass. the test should be fixed so that filters are set to the two desired flags." ) | ^ -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target DumpReferenceFASTA -[ 96%] Built target test-ngs -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/depend -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/DependInfo.cmake "--color=" -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -MF CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o.d -o CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1test.cpp -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -E touch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir/java_compiled_ngs-examples -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -MF CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o.d -o CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1PileupTest.cpp -[ 96%] Linking C executable ../../../bin/prefetch -[ 96%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/prefetch && /usr/bin/cmake -E cmake_link_script CMakeFiles/prefetch.dir/link.txt --verbose=1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -MF CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o.d -o CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/test-ngs-vdb.cpp -[ 96%] Generating CMakeFiles/ngs-examples.dir/java_class_filelist -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-java/examples && /usr/bin/cmake -DCMAKE_JAVA_CLASS_OUTPUT_PATH=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir -DCMAKE_JAR_CLASSES_PREFIX= -P /usr/share/cmake-3.31/Modules/UseJava/ClassFilelist.cmake -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/ngs-java/CMakeFiles/test-ngs-java.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=test-ngs-java.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake -[ 96%] Creating Java archive ngs-examples.jar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/jar -cf /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib/ngs-examples.jar @java_class_filelist -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target test-ngs-java -make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/ref-variation.dir/DependInfo.cmake "--color=" -[ 96%] Linking CXX executable ../../../bin/ngs-pileup -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/ngs-pileup.dir/link.txt --verbose=1 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/cc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/prefetch.dir/link.d "CMakeFiles/prefetch.dir/kfile-no-q.c.o" CMakeFiles/prefetch.dir/PrfMain.c.o CMakeFiles/prefetch.dir/prefetch.c.o CMakeFiles/prefetch.dir/PrfRetrier.c.o CMakeFiles/prefetch.dir/PrfOutFile.c.o -o ../../../bin/prefetch ../../../ilib/libascp.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f prefetch.3.0.9 -[ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -MF CMakeFiles/ref-variation.dir/common.cpp.o.d -o CMakeFiles/ref-variation.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv prefetch prefetch.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3.0.9 prefetch.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s prefetch.3 prefetch -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sratools.3.0.9 prefetch-driver -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target prefetch -make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/var-expand.dir/DependInfo.cmake "--color=" -make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/CMakeFiles/sra-search.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/build +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs.dir/link.d "CMakeFiles/test-ngs.dir/ngstest.cpp.o" -o ../../../test-bin/test-ngs -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -MF CMakeFiles/var-expand.dir/common.cpp.o.d -o CMakeFiles/var-expand.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp -[ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -MF CMakeFiles/sra-search.dir/main.cpp.o.d -o CMakeFiles/sra-search.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/main.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/ngs/ngs-java/examples/CMakeFiles/ngs-examples.dir && /usr/bin/cmake -D_JAVA_TARGET_DIR=/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/lib -D_JAVA_TARGET_OUTPUT_NAME=ngs-examples.jar -D_JAVA_TARGET_OUTPUT_LINK= -P /usr/share/cmake-3.31/Modules/UseJava/Symlinks.cmake make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target ngs-examples -make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/depend -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ngs-pileup.dir/link.d "CMakeFiles/ngs-pileup.dir/ngs-pileup.cpp.o" "CMakeFiles/ngs-pileup.dir/main.cpp.o" -o ../../../bin/ngs-pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -MF CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o.d -o CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/ngstest_byteblob.cpp +[ 97%] Built target test-ngs +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ngs-pileup.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ngs-pileup ngs-pileup.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3.0.9 ngs-pileup.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ngs-pileup.3 ngs-pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -MF CMakeFiles/ref-variation.dir/helper.cpp.o.d -o CMakeFiles/ref-variation.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -MF CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search.cpp -[ 96%] Built target ngs-pileup -[ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -MF CMakeFiles/ref-variation.dir/ref-variation.cpp.o.d -o CMakeFiles/ref-variation.dir/ref-variation.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/ref-variation.cpp -[ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -MF CMakeFiles/var-expand.dir/helper.cpp.o.d -o CMakeFiles/var-expand.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp -[ 96%] Linking CXX executable ../../../test-bin/Test_Vdb_dump_view-spec -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-dump && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Vdb_dump_view-spec.dir/link.txt --verbose=1 +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -MF CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o.d -o CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRAtest.cpp +[ 97%] Linking CXX executable ../../../test-bin/Test_Ngs_Pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Ngs_Pileup.dir/link.txt --verbose=1 /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h: In instantiation of 'constexpr fmt::v8::detail::value fmt::v8::detail::make_arg(const T&) [with bool IS_PACKED = true; Context = fmt::v8::basic_format_context; type = fmt::v8::detail::type::string_type; T = std::__cxx11::basic_string; typename std::enable_if::type = 0]': /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1694:64: required from 'constexpr fmt::v8::format_arg_store::format_arg_store(const Args& ...) [with Context = fmt::v8::basic_format_context; Args = {std::__cxx11::basic_string, std::allocator >, spdlog::stopwatch, long unsigned int}]' 1692 | data_{detail::make_arg< @@ -6415,217 +6479,234 @@ /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/bam-loader/./spdlog/fmt/bundled/core.h:1566:46: note: the temporary was destroyed at the end of the full expression 'fmt::v8::detail::arg_mapper >().fmt::v8::detail::arg_mapper >::map >((* & val))' 1566 | const auto& arg = arg_mapper().map(val); | ~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~ -[ 96%] Linking CXX executable ../../../test-bin/Test_Align_samextract -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Align_samextract.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Vdb_dump_view-spec.dir/link.d "CMakeFiles/Test_Vdb_dump_view-spec.dir/test-view-spec.cpp.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-view-spec.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-helper.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-context.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-coldefs.c.o" "CMakeFiles/Test_Vdb_dump_view-spec.dir/__/__/__/tools/external/vdb-dump/vdb-dump-str.c.o" -o ../../../test-bin/Test_Vdb_dump_view-spec /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target Test_Vdb_dump_view-spec -[ 96%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -MF CMakeFiles/var-expand.dir/var-expand.cpp.o.d -o CMakeFiles/var-expand.dir/var-expand.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/var-expand.cpp -[ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqLoader +[ 97%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqParse +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqLoader cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Align_samextract.dir/link.d "CMakeFiles/Test_Align_samextract.dir/test-samextract.cpp.o" -o ../../../test-bin/Test_Align_samextract -lsam-extract /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 97%] Linking CXX executable ../../../test-bin/SlowTest_Align_estimator +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Align_estimator.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Ngs_Pileup.dir/link.d "CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o" -o ../../../test-bin/Test_Ngs_Pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target Test_Align_samextract -[ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -MF CMakeFiles/sra-search.dir/searchblock.cpp.o.d -o CMakeFiles/sra-search.dir/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqLoader ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +[ 97%] Built target Test_Ngs_Pileup +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp -[ 96%] Built target Test_FastqLoader_WbFastqLoader -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp -[ 96%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastqParse -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.txt --verbose=1 -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqParse.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqParse.dir/wb-test-fastq-parse.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqParse ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp -[ 96%] Built target Test_FastqLoader_WbFastqParse -[ 96%] Linking CXX executable ../../bin/gw-dumper -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/general-writer && /usr/bin/cmake -E cmake_link_script CMakeFiles/gw-dumper.dir/link.txt --verbose=1 -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp -[ 96%] Linking CXX executable ../../../bin/vdb-config -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-config.dir/link.txt --verbose=1 -[ 96%] Linking CXX executable ../../../test-bin/Test_Drivertool_FilePath -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_FilePath.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/gw-dumper.dir/link.d "CMakeFiles/gw-dumper.dir/gw-dumper.cpp.o" -o ../../bin/gw-dumper ../../ilib/libgeneral-writer.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target gw-dumper -[ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -MF CMakeFiles/sra-search.dir/referencematchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp -[ 96%] Linking CXX executable ../../../bin/var-expand -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/var-expand.dir/link.txt --verbose=1 -make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/depend +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -MF CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o.d -o CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/SRADBtest.cpp +[ 97%] Built target Test_FastqLoader_WbFastqParse +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search-slow.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_FilePath.dir/link.d "CMakeFiles/Test_Drivertool_FilePath.dir/test-filepath.cpp.o" -o ../../../test-bin/Test_Drivertool_FilePath /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Built target Test_Drivertool_FilePath -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/vdb-config.dir/link.d "CMakeFiles/vdb-config.dir/configure.cpp.o" "CMakeFiles/vdb-config.dir/util.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config.c.o" "CMakeFiles/vdb-config.dir/interactive2.cpp.o" "CMakeFiles/vdb-config.dir/vdb-config-model.cpp.o" -o ../../../bin/vdb-config ../../../ilib/libtui_cpp.a ../../../ilib/libtui.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f vdb-config.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv vdb-config vdb-config.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3.0.9 vdb-config.3 -[ 96%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-config.3 vdb-config -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -MF CMakeFiles/sra-search.dir/vdb-search.cpp.o.d -o CMakeFiles/sra-search.dir/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/vdb-config && /usr/bin/cmake -E copy /usr/include/ncbi-vdb/kfg/ncbi/default.kfg /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/ncbi/default.kfg +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastqLoader.dir/test-fastq-loader.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastqLoader ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Linking CXX executable ../../../test-bin/SlowTest_Align_estimator -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/internal/align && /usr/bin/cmake -E cmake_link_script CMakeFiles/SlowTest_Align_estimator.dir/link.txt --verbose=1 -[ 96%] Built target vdb-config -make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/depend +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -MF CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o.d -o CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1test.cpp +[ 97%] Built target Test_FastqLoader_WbFastqLoader +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 96%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-searchblock.cpp -[ 97%] Linking CXX executable ../../../test-bin/test-vdb-config-model -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb-config-model.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/var-expand.dir/link.d "CMakeFiles/var-expand.dir/common.cpp.o" "CMakeFiles/var-expand.dir/helper.cpp.o" "CMakeFiles/var-expand.dir/var-expand.cpp.o" -o ../../../bin/var-expand ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f var-expand.3.0.9 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv var-expand var-expand.3.0.9 -make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/depend -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/DependInfo.cmake "--color=" -[ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3.0.9 var-expand.3 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3 var-expand -[ 97%] Linking CXX executable ../../../test-bin/Test_Ngs_Pileup -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Ngs_Pileup.dir/link.txt --verbose=1 -make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/depend +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/build +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Align_estimator.dir/link.d CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -o ../../../test-bin/SlowTest_Align_estimator ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/DependInfo.cmake "--color=" -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/depend make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/DependInfo.cmake "--color=" +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -MF CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o.d -o CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/CSRA1PileupTest.cpp +[ 97%] Built target SlowTest_Align_estimator +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 97%] Built target var-expand -make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/depend +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build.make libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/prefetch/CMakeFiles/Build-prefetch.dir/DependInfo.cmake "--color=" +[ 97%] Building CXX object libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D_LIBRARY -D__fext__=\"cpp\" -D__file__=\"__FILE__\" -D__mod__=\"NGS_TEST\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/usr/include/ncbi-vdb/../libs/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -fPIE -rdynamic -MD -MT libs/ngs-vdb/test/CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -MF CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o.d -o CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/ngs-vdb/test/test-ngs-vdb.cpp +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3VdbeExpandSql': +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] +77729 | return sqlite3StrAccumFinish(&out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here +77625 | char zBase[100]; /* Initial working space */ + | ^~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] +77729 | return sqlite3StrAccumFinish(&out); + | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here +77625 | char zBase[100]; /* Initial working space */ + | ^~~~~ +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here +/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here +[ 97%] Linking CXX executable ../../../test-bin/test-byteblob +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-byteblob.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-byteblob.dir/link.d "CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o" -o ../../../test-bin/test-byteblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build +[ 97%] Built target test-byteblob +make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/ref-variation.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build -[ 97%] Building CXX object tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o +make -f tools/external/ref-variation/CMakeFiles/ref-variation.dir/build.make tools/external/ref-variation/CMakeFiles/ref-variation.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build'. +[ 97%] Linking CXX executable ../../../test-bin/test-fragmentblob +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-fragmentblob.dir/link.txt --verbose=1 +[ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/common.cpp.o -MF CMakeFiles/ref-variation.dir/common.cpp.o.d -o CMakeFiles/ref-variation.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-fragmentblob.dir/link.d "CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o" -o ../../../test-bin/test-fragmentblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -MF CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o.d -o CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats/pileup-stats.cpp +[ 97%] Built target test-fragmentblob +make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation/CMakeFiles/var-expand.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/prefetch/CMakeFiles/Build-prefetch.dir/build.make test/external/prefetch/CMakeFiles/Build-prefetch.dir/build +make -f tools/external/ref-variation/CMakeFiles/var-expand.dir/build.make tools/external/ref-variation/CMakeFiles/var-expand.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/prefetch/CMakeFiles/Build-prefetch.dir/build'. +[ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/common.cpp.o -MF CMakeFiles/var-expand.dir/common.cpp.o.d -o CMakeFiles/var-expand.dir/common.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/common.cpp +[ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/helper.cpp.o -MF CMakeFiles/ref-variation.dir/helper.cpp.o.d -o CMakeFiles/ref-variation.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp +[ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/helper.cpp.o -MF CMakeFiles/var-expand.dir/helper.cpp.o.d -o CMakeFiles/var-expand.dir/helper.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/helper.cpp +[ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/ref-variation\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/ref-variation.dir/ref-variation.cpp.o -MF CMakeFiles/ref-variation.dir/ref-variation.cpp.o.d -o CMakeFiles/ref-variation.dir/ref-variation.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/ref-variation.cpp +[ 97%] Building CXX object tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/var-expand\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/ref-variation/CMakeFiles/var-expand.dir/var-expand.cpp.o -MF CMakeFiles/var-expand.dir/var-expand.cpp.o.d -o CMakeFiles/var-expand.dir/var-expand.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/var-expand.cpp +[ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1_pileup +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_pileup.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_pileup.dir/link.d "CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o" -o ../../../test-bin/test-ngs_csra1_pileup -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 97%] Building CXX object test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/ngs/testy-the-bear\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -MF CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o.d -o CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear/testy-the-bear.cpp -[ 97%] Built target Build-ngs-pileup -[ 97%] Built target Build-prefetch -[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp -[ 98%] Linking CXX executable ../../../bin/sam-factory -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-factory && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-factory.dir/link.txt --verbose=1 -[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/SlowTest_Align_estimator.dir/link.d CMakeFiles/SlowTest_Align_estimator.dir/pileup_estimator.cpp.o -o ../../../test-bin/SlowTest_Align_estimator ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 97%] Built target test-ngs_csra1_pileup +make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/CMakeFiles/sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target SlowTest_Align_estimator -make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/depend +make -f tools/external/sra-search/CMakeFiles/sra-search.dir/build.make tools/external/sra-search/CMakeFiles/sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb-config-model.dir/link.d "CMakeFiles/test-vdb-config-model.dir/test-vdb-config-model.cpp.o" -o ../../../test-bin/test-vdb-config-model /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 97%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/main.cpp.o -MF CMakeFiles/sra-search.dir/main.cpp.o.d -o CMakeFiles/sra-search.dir/main.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/main.cpp +[ 97%] Linking CXX executable ../../../bin/var-expand +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/var-expand.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable ../../../test-bin/test-referenceblob +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-referenceblob.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1_refwin +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_refwin.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable ../../../test-bin/test-ngs_csra1pileup++ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1pileup++.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/var-expand.dir/link.d "CMakeFiles/var-expand.dir/common.cpp.o" "CMakeFiles/var-expand.dir/helper.cpp.o" "CMakeFiles/var-expand.dir/var-expand.cpp.o" -o ../../../bin/var-expand ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f var-expand.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv var-expand var-expand.3.0.9 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3.0.9 var-expand.3 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s var-expand.3 var-expand make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/depend +[ 97%] Built target var-expand +make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build.make test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build +make -f tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/vdb-config/CMakeFiles/Build-vdb-config.dir/build'. +[ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -MF CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-referenceblob.dir/link.d "CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o" -o ../../../test-bin/test-referenceblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Ngs_Pileup.dir/link.d "CMakeFiles/Test_Ngs_Pileup.dir/test-ngs-pileup.cpp.o" -o ../../../test-bin/Test_Ngs_Pileup ../../../lib/libncbi-ngs-c++.a ../../../lib/libngs-c++.a ../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 97%] Built target test-referenceblob +make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_refwin.dir/link.d "CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o" -o ../../../test-bin/test-ngs_csra1_refwin -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build.make test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build +make -f tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build.make tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/build +[ 97%] Built target test-ngs_csra1_refwin make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/vdb-validate/CMakeFiles/Build-vdb-validate.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-vdb-config-model -make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/depend +make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/kar/CMakeFiles/Build-kar.dir/DependInfo.cmake "--color=" -[ 98%] Built target Test_Ngs_Pileup -[ 98%] Built target Build-vdb-config -[ 98%] Built target Build-vdb-validate -[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/loaders/kar/CMakeFiles/Build-kar.dir/build.make test/loaders/kar/CMakeFiles/Build-kar.dir/build +make -f tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build.make tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/build +[ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/loaders/kar/CMakeFiles/Build-kar.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp -[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -[ 98%] Built target Build-kar -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp -[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-factory.dir/link.d "CMakeFiles/sam-factory.dir/sam-factory.cpp.o" -o ../../../bin/sam-factory /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target sam-factory -[ 98%] Linking CXX executable ../../../../test-bin/testy-the-bear -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/cmake -E cmake_link_script CMakeFiles/testy-the-bear.dir/link.txt --verbose=1 -[ 98%] Linking CXX executable ../../../test-bin/Test_Drivertool_RunSource -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/driver-tool && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_Drivertool_RunSource.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testy-the-bear.dir/link.d "CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o" -o ../../../../test-bin/testy-the-bear /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a ../../../../lib/libncbi-ngs-c++.a ../../../../lib/libncbi-ngs.a ../../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-sra-search-slow.cpp +[ 97%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/test-searchblock.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1pileup++.dir/link.d "CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o" -o ../../../test-bin/test-ngs_csra1pileup++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target testy-the-bear -[ 98%] Linking CXX executable ../../../test-bin/test-byteblob -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-byteblob.dir/link.txt --verbose=1 -[ 98%] Linking CXX executable ../../test-bin/test-vdb -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/vdb && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-vdb.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_Drivertool_RunSource.dir/link.d "CMakeFiles/Test_Drivertool_RunSource.dir/test-run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/run-source.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/command-line.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/SDL-response.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/file-path.posix.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/json-parse.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/build-version.cpp.o" "CMakeFiles/Test_Drivertool_RunSource.dir/__/__/__/tools/external/driver-tool/tool-args.cpp.o" -o ../../../test-bin/Test_Drivertool_RunSource /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 97%] Built target test-ngs_csra1pileup++ +make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target Test_Drivertool_RunSource -[ 98%] Linking CXX executable ../../../bin/ref-variation +make -f tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build.make tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 97%] Building CXX object tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/test-tools/pileup-stats/CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -MF CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o.d -o CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/test-tools/pileup-stats/pileup-stats.cpp +[ 97%] Linking CXX executable ../../../test-bin/test-ngs_sra_c++ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra_c++.dir/link.txt --verbose=1 +[ 97%] Linking CXX executable ../../../bin/ref-variation cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/ref-variation && /usr/bin/cmake -E cmake_link_script CMakeFiles/ref-variation.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-byteblob.dir/link.d "CMakeFiles/test-byteblob.dir/ngstest_byteblob.cpp.o" -o ../../../test-bin/test-byteblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra_c++.dir/link.d "CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o" -o ../../../test-bin/test-ngs_sra_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-byteblob -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-vdb.dir/link.d "CMakeFiles/test-vdb.dir/test-vdb.cpp.o" -o ../../test-bin/test-vdb -lkapp /usr/lib/x86_64-linux-gnu/libkapp.a ../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +[ 97%] Built target test-ngs_sra_c++ +make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-vdb +make -f test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build.make test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 97%] Building CXX object test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"test/ngs/testy-the-bear\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ncbi/ngs -I/build/reproducible-path/sra-sdk-3.0.9+dfsg -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT test/external/ngs/testy-the-bear/CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -MF CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o.d -o CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs/testy-the-bear/testy-the-bear.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/ref-variation.dir/link.d "CMakeFiles/ref-variation.dir/common.cpp.o" "CMakeFiles/ref-variation.dir/helper.cpp.o" "CMakeFiles/ref-variation.dir/ref-variation.cpp.o" -o ../../../bin/ref-variation ../../../ilib/libtk-version.a -lkapp ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv ref-variation ref-variation.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3.0.9 ref-variation.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s ref-variation.3 ref-variation make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target ref-variation +[ 97%] Built target ref-variation +make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/depend +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build.make test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/ngs-pileup/CMakeFiles/Build-ngs-pileup.dir/build'. +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 97%] Built target Build-ngs-pileup +[ 97%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/searchblock.cpp.o -MF CMakeFiles/sra-search.dir/searchblock.cpp.o.d -o CMakeFiles/sra-search.dir/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp +[ 97%] Linking CXX executable ../../../../test-bin/testy-the-bear +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/ngs/testy-the-bear && /usr/bin/cmake -E cmake_link_script CMakeFiles/testy-the-bear.dir/link.txt --verbose=1 +[ 98%] Linking CXX executable ../../../test-bin/test-ngs_reference +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_reference.dir/link.txt --verbose=1 +[ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/testy-the-bear.dir/link.d "CMakeFiles/testy-the-bear.dir/testy-the-bear.cpp.o" -o ../../../../test-bin/testy-the-bear /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a ../../../../lib/libncbi-ngs-c++.a ../../../../lib/libncbi-ngs.a ../../../../ilib/libngs.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target testy-the-bear +[ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -MF CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp +[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -MF CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp +[ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -MF CMakeFiles/sra-search.dir/referencematchiterator.cpp.o.d -o CMakeFiles/sra-search.dir/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp [ 98%] Linking CXX executable ../../../bin/pileup-stats cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/pileup-stats && /usr/bin/cmake -E cmake_link_script CMakeFiles/pileup-stats.dir/link.txt --verbose=1 -[ 98%] Linking CXX executable ../../../bin/sra-search -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-search.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_reference.dir/link.d "CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o" -o ../../../test-bin/test-ngs_reference -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target test-ngs_reference +[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp +[ 98%] Linking CXX executable ../../../test-bin/test-ngs_sradb +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb.dir/link.txt --verbose=1 +[ 98%] Building CXX object tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/sra-search\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/CMakeFiles/sra-search.dir/vdb-search.cpp.o -MF CMakeFiles/sra-search.dir/vdb-search.cpp.o.d -o CMakeFiles/sra-search.dir/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/pileup-stats.dir/link.d "CMakeFiles/pileup-stats.dir/pileup-stats.cpp.o" -o ../../../bin/pileup-stats ../../../ilib/libgeneral-writer.a ../../../lib/libncbi-ngs.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f pileup-stats.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv pileup-stats pileup-stats.3.0.9 @@ -6633,15 +6714,56 @@ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s pileup-stats.3 pileup-stats make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target pileup-stats -[ 98%] Linking CXX executable ../../../test-bin/test-fragmentblob -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-fragmentblob.dir/link.txt --verbose=1 +[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp +[ 98%] Linking CXX executable ../../../../test-bin/test-searchblock +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-searchblock.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb.dir/link.d "CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o" -o ../../../test-bin/test-ngs_sradb -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 98%] Built target test-ngs_sradb +[ 98%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/vdb-search.cpp +[ 99%] Linking CXX executable ../../../test-bin/test-ngs-vdb +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs-vdb.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-searchblock.dir/link.d "CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o" "CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o" -o ../../../../test-bin/test-searchblock ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 99%] Built target test-searchblock +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp +[ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_readcollection +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_readcollection.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs-vdb.dir/link.d "CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o" -o ../../../test-bin/test-ngs-vdb ../../../ilib/libtk-version.a ../../../ilib/libngs-vdb.a -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 99%] Built target test-ngs-vdb +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/searchblock.cpp +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/blobmatchiterator.cpp +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/fragmentmatchiterator.cpp +[ 99%] Linking CXX executable ../../../../test-bin/test-general-loader +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-loader.dir/link.txt --verbose=1 +[ 99%] Building CXX object tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_readcollection.dir/link.d "CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o" -o ../../../test-bin/test-ngs_csra1_readcollection -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/c++ -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test/.. -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c++11 -rdynamic -MD -MT tools/external/sra-search/test/CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -MF CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o.d -o CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/referencematchiterator.cpp +[ 99%] Built target test-ngs_csra1_readcollection +[ 99%] Linking CXX executable ../../../bin/sra-search +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search && /usr/bin/cmake -E cmake_link_script CMakeFiles/sra-search.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-loader.dir/link.d "CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o" "CMakeFiles/test-general-loader.dir/testsource.cpp.o" -o ../../../../test-bin/test-general-loader ../../../../ilib/libgeneral-writer.a -lkapp -lktst ../../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[ 99%] Built target test-general-loader /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sra-search.dir/link.d "CMakeFiles/sra-search.dir/main.cpp.o" "CMakeFiles/sra-search.dir/searchblock.cpp.o" "CMakeFiles/sra-search.dir/fragmentmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/blobmatchiterator.cpp.o" "CMakeFiles/sra-search.dir/referencematchiterator.cpp.o" "CMakeFiles/sra-search.dir/vdb-search.cpp.o" -o ../../../bin/sra-search ../../../ilib/libngs-vdb.a ../../../lib/libncbi-ngs.a ../../../ilib/libtk-version.a -Wl,-Bstatic -lkapp -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && rm -f sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && mv sra-search sra-search.3.0.9 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3.0.9 sra-search.3 cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s sra-search.3 sra-search make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target sra-search +[ 99%] Built target sra-search make -f tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build.make tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/depend make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/DependInfo.cmake "--color=" @@ -6650,128 +6772,37 @@ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/external/sra-search/test/CMakeFiles/Build-sra-search.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target Build-sra-search -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-fragmentblob.dir/link.d "CMakeFiles/test-fragmentblob.dir/ngstest_fragmentblob.cpp.o" -o ../../../test-bin/test-fragmentblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-fragmentblob -[ 98%] Linking CXX executable ../../../../test-bin/test-searchblock -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-searchblock.dir/link.txt --verbose=1 -[ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1pileup++ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1pileup++.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-searchblock.dir/link.d "CMakeFiles/test-searchblock.dir/test-searchblock.cpp.o" "CMakeFiles/test-searchblock.dir/__/searchblock.cpp.o" -o ../../../../test-bin/test-searchblock ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-searchblock -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1pileup++.dir/link.d "CMakeFiles/test-ngs_csra1pileup++.dir/CSRA1PileupTest.cpp.o" -o ../../../test-bin/test-ngs_csra1pileup++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Linking CXX executable ../../../../test-bin/test-sra-search +[ 99%] Linking CXX executable ../../../test-bin/test-ngs_sradb_c++ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb_c++.dir/link.txt --verbose=1 +[ 99%] Built target Build-sra-search +[ 99%] Linking CXX executable ../../../../test-bin/test-sra-search cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search.dir/link.txt --verbose=1 -[ 98%] Built target test-ngs_csra1pileup++ -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search.dir/link.d "CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb_c++.dir/link.d "CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o" -o ../../../test-bin/test-ngs_sradb_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-sra-search -[ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_pileup -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_pileup.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_pileup.dir/link.d "CMakeFiles/test-ngs_csra1_pileup.dir/ngstest_csra1_pileup.cpp.o" -o ../../../test-bin/test-ngs_csra1_pileup -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +[ 99%] Built target test-ngs_sradb_c++ +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search.dir/link.d "CMakeFiles/test-sra-search.dir/test-sra-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-ngs_csra1_pileup -[ 98%] Linking CXX executable ../../../test-bin/test-ngs_csra1_refwin -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_refwin.dir/link.txt --verbose=1 -[ 98%] Linking CXX executable ../../../../test-bin/test-sra-search-slow -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_refwin.dir/link.d "CMakeFiles/test-ngs_csra1_refwin.dir/ngstest_csra1_refwin.cpp.o" -o ../../../test-bin/test-ngs_csra1_refwin -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +[ 99%] Built target test-sra-search +[ 99%] Linking CXX executable ../../../../test-bin/test-sra-search-slow cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/external/sra-search/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-sra-search-slow.dir/link.txt --verbose=1 -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-ngs_csra1_refwin -[ 98%] Linking CXX executable ../../../test-bin/test-ngs-vdb -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs-vdb.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-sra-search-slow.dir/link.d "CMakeFiles/test-sra-search-slow.dir/test-sra-search-slow.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/vdb-search.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/searchblock.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/blobmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/fragmentmatchiterator.cpp.o" "CMakeFiles/test-sra-search-slow.dir/__/referencematchiterator.cpp.o" -o ../../../../test-bin/test-sra-search-slow ../../../../ilib/libngs-vdb.a ../../../../lib/libncbi-ngs.a -Wl,-Bstatic -lktst -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Linking CXX executable ../../../test-bin/test-ngs_sra_c++ -[ 98%] Built target test-sra-search-slow -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra_c++.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs-vdb.dir/link.d "CMakeFiles/test-ngs-vdb.dir/test-ngs-vdb.cpp.o" -o ../../../test-bin/test-ngs-vdb ../../../ilib/libtk-version.a ../../../ilib/libngs-vdb.a -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-ngs-vdb -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra_c++.dir/link.d "CMakeFiles/test-ngs_sra_c++.dir/SRAtest.cpp.o" -o ../../../test-bin/test-ngs_sra_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-ngs_sra_c++ -[ 98%] Linking CXX executable ../../../test-bin/test-referenceblob -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-referenceblob.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-referenceblob.dir/link.d "CMakeFiles/test-referenceblob.dir/ngstest_referenceblob.cpp.o" -o ../../../test-bin/test-referenceblob -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-referenceblob -[ 98%] Linking CXX executable ../../../test-bin/test-ngs_sradb_c++ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb_c++.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb_c++.dir/link.d "CMakeFiles/test-ngs_sradb_c++.dir/SRADBtest.cpp.o" -o ../../../test-bin/test-ngs_sradb_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 98%] Built target test-ngs_sradb_c++ -[ 99%] Linking CXX executable ../../../test-bin/test-ngs_reference -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_reference.dir/link.txt --verbose=1 -[ 99%] Linking CXX executable ../../../test-bin/Test_SraInfo_Unit -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sra-info && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_SraInfo_Unit.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_reference.dir/link.d "CMakeFiles/test-ngs_reference.dir/ngstest_reference.cpp.o" -o ../../../test-bin/test-ngs_reference -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_SraInfo_Unit.dir/link.d "CMakeFiles/Test_SraInfo_Unit.dir/test-sra-info.cpp.o" -o ../../../test-bin/Test_SraInfo_Unit /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 99%] Built target test-ngs_reference -[ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_readcollection -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_readcollection.dir/link.txt --verbose=1 -[ 99%] Built target Test_SraInfo_Unit -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_readcollection.dir/link.d "CMakeFiles/test-ngs_csra1_readcollection.dir/ngstest_csra1_readcollection.cpp.o" -o ../../../test-bin/test-ngs_csra1_readcollection -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 99%] Built target test-ngs_csra1_readcollection -[ 99%] Linking CXX executable ../../../test-bin/test-ngs_sradb -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sradb.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sradb.dir/link.d "CMakeFiles/test-ngs_sradb.dir/ngstest_sradb.cpp.o" -o ../../../test-bin/test-ngs_sradb -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 99%] Built target test-ngs_sradb -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3SelectNew': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115649:10: warning: function may return address of local variable [-Wreturn-local-addr] -115649 | return pNew; - | ^~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:115609:10: note: declared here -115609 | Select standin; - | ^~~~~~~ -[ 99%] Linking CXX executable ../../../../test-bin/test-general-loader -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-general-loader.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-general-loader.dir/link.d "CMakeFiles/test-general-loader.dir/test-general-loader.cpp.o" "CMakeFiles/test-general-loader.dir/testsource.cpp.o" -o ../../../../test-bin/test-general-loader ../../../../ilib/libgeneral-writer.a -lkapp -lktst ../../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 99%] Built target test-general-loader +[ 99%] Built target test-sra-search-slow [ 99%] Linking CXX executable ../../../test-bin/test-ngs_sra cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_sra.dir/link.txt --verbose=1 +[ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1 +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_sra.dir/link.d "CMakeFiles/test-ngs_sra.dir/ngstest_sra.cpp.o" -o ../../../test-bin/test-ngs_sra -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_sra -[ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1 -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1.dir/link.txt --verbose=1 -[ 99%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastq_dflt -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1.dir/link.d "CMakeFiles/test-ngs_csra1.dir/ngstest_csra1.cpp.o" -o ../../../test-bin/test-ngs_csra1 -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target test-ngs_csra1 +[ 99%] Linking CXX executable ../../../test-bin/Test_FastqLoader_WbFastq_dflt +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/fastq-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/link.d "CMakeFiles/Test_FastqLoader_WbFastq_dflt.dir/wb-test-fastq.cpp.o" -o ../../../test-bin/Test_FastqLoader_WbFastq_dflt ../../../ilib/libfastqloader.a ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libktst.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target Test_FastqLoader_WbFastq_dflt -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c: In function 'sqlite3VdbeExpandSql': -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] -77729 | return sqlite3StrAccumFinish(&out); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here -77625 | char zBase[100]; /* Initial working space */ - | ^~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77729:10: warning: function may return address of local variable [-Wreturn-local-addr] -77729 | return sqlite3StrAccumFinish(&out); - | ^~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here -77625 | char zBase[100]; /* Initial working space */ - | ^~~~~ -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here -/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/vdb-sqlite/sqlite3.c:77625:8: note: declared here -[ 99%] Linking CXX executable ../../../test-bin/test-ngs_csra1_c++ -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_c++.dir/link.txt --verbose=1 -/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_c++.dir/link.d "CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o" -o ../../../test-bin/test-ngs_csra1_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[ 99%] Built target test-ngs_csra1_c++ [ 99%] Linking C static library ../../ilib/libvdb-sqlite.a cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -P CMakeFiles/vdb-sqlite.dir/cmake_clean_target.cmake cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/vdb-sqlite && /usr/bin/cmake -E cmake_link_script CMakeFiles/vdb-sqlite.dir/link.txt --verbose=1 @@ -6786,10 +6817,10 @@ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql/CMakeFiles/fastconv.dir/DependInfo.cmake "--color=" make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make -f tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build.make tools/internal/vdb-sql/CMakeFiles/fastconv.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build.make tools/internal/vdb-sql/CMakeFiles/vdb-sql.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [ 99%] Building C object tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/internal/vdb-sql && /usr/bin/cc -DLINUX -DNDEBUG -DUNIX -D_ARCH_BITS=64 -D_GNU_SOURCE -D__mod__=\"tools/internal/vdb-sql\" -Dx86_64 -I/usr/include/ncbi-vdb -I/usr/include/ncbi-vdb/cc/gcc -I/usr/include/ncbi-vdb/cc/gcc/x86_64 -I/usr/include/ncbi-vdb/os/linux -I/usr/include/ncbi-vdb/os/unix -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/ngs/ngs-sdk -I/build/reproducible-path/sra-sdk-3.0.9+dfsg/libs/inc -Wall -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -std=c11 -rdynamic -MD -MT tools/internal/vdb-sql/CMakeFiles/fastconv.dir/fastconv.c.o -MF CMakeFiles/fastconv.dir/fastconv.c.o.d -o CMakeFiles/fastconv.dir/fastconv.c.o -c /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/internal/vdb-sql/fastconv.c @@ -6813,6 +6844,11 @@ cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin && ln -f -s vdb-sql.3 vdb-sql make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' [100%] Built target vdb-sql +[100%] Linking CXX executable ../../../test-bin/test-ngs_csra1_c++ +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/libs/ngs-vdb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test-ngs_csra1_c++.dir/link.txt --verbose=1 +/usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/test-ngs_csra1_c++.dir/link.d "CMakeFiles/test-ngs_csra1_c++.dir/CSRA1test.cpp.o" -o ../../../test-bin/test-ngs_csra1_c++ -Wl,-Bstatic -lktst -lkapp ../../../lib/libncbi-ngs.a -Wl,-Bdynamic /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +[100%] Built target test-ngs_csra1_c++ [100%] Linking CXX executable ../../../bin/bam-load cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/bam-loader && /usr/bin/cmake -E cmake_link_script CMakeFiles/bam-load.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/bam-load.dir/link.d "CMakeFiles/bam-load.dir/bam-loader.c.o" "CMakeFiles/bam-load.dir/bam.c.o" "CMakeFiles/bam-load.dir/sam.c.o" "CMakeFiles/bam-load.dir/alignment-writer.c.o" "CMakeFiles/bam-load.dir/reference-writer.c.o" "CMakeFiles/bam-load.dir/sequence-writer.c.o" "CMakeFiles/bam-load.dir/loader-imp.c.o" "CMakeFiles/bam-load.dir/mem-bank.cpp.o" "CMakeFiles/bam-load.dir/low-match-count.cpp.o" -o ../../../bin/bam-load ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm ../../../ilib/libloader.a /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-wvdb.so -lpthread -ldl -lm -lz @@ -6829,35 +6865,35 @@ make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/DependInfo.cmake "--color=" -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/DependInfo.cmake "--color=" make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/DependInfo.cmake "--color=" +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/sra-sdk-3.0.9+dfsg /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/DependInfo.cmake "--color=" +make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build +make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' +make[3]: Nothing to be done for 'test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make -f test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build.make test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build make -f test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build.make test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build +make -f test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build.make test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build make -f test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build.make test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build'. -make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/external/fasterq-dump/CMakeFiles/Build-fasterq-dump.dir/build'. +make[3]: Nothing to be done for 'test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -make[3]: Nothing to be done for 'test/loaders/bam-load/CMakeFiles/Build-bam-load.dir/build'. +make[3]: Nothing to be done for 'test/external/sam-dump/CMakeFiles/Build-sam-dump.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/loaders/sra-sort/CMakeFiles/Build-sra-sort.dir/build'. make[3]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' -[100%] Built target Build-sra-sort [100%] Built target Build-bam-load [100%] Built target Build-sam-dump [100%] Built target Build-fasterq-dump +[100%] Built target Build-sra-sort [100%] Linking CXX executable ../../../bin/sam-analyze cd /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/test-tools/sam-analyze && /usr/bin/cmake -E cmake_link_script CMakeFiles/sam-analyze.dir/link.txt --verbose=1 /usr/bin/c++ -Wall -g -O2 -ffile-prefix-map=/build/reproducible-path/sra-sdk-3.0.9+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -fsigned-char -Wdate-time -D_FORTIFY_SOURCE=2 -DH5_USE_110_API -Wno-unused-function -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file,CMakeFiles/sam-analyze.dir/link.d "CMakeFiles/sam-analyze.dir/main.cpp.o" "CMakeFiles/sam-analyze.dir/sqlite3.c.o" -o ../../../bin/sam-analyze /usr/lib/x86_64-linux-gnu/libkapp.a ../../../ilib/libtk-version.a /usr/lib/x86_64-linux-gnu/libncbi-vdb.so -lpthread -ldl -lm @@ -6919,7 +6955,7 @@ 9: build/bdist.linux-x86_64/egg/ngs/LibManager.py:123: SyntaxWarning: invalid escape sequence '\.' 9: arr = re.split('\.\s*|\-\s*|\s+', version_str) 9: zip_safe flag not set; analyzing archive contents... - 1/187 Test #9: Test_NGS_Python_install ........................... Passed 0.74 sec + 1/187 Test #9: Test_NGS_Python_install ........................... Passed 0.52 sec test 15 Start 15: Ngs_MakeDB @@ -6930,7 +6966,7 @@ 15: SparseFragmentBlobs (0 s) 15: 15: *** No errors detected (0 s total) - 2/187 Test #15: Ngs_MakeDB ........................................ Passed 0.10 sec + 2/187 Test #15: Ngs_MakeDB ........................................ Passed 0.06 sec test 16 Start 16: Test_Ngs @@ -6939,7 +6975,7 @@ 16: Test timeout computed to be: 1500 16: 16: *** No errors detected (0 s total) - 3/187 Test #16: Test_Ngs .......................................... Passed 0.00 sec + 3/187 Test #16: Test_Ngs .......................................... Passed 0.01 sec test 32 Start 32: GeneralWriterTest @@ -6978,7 +7014,7 @@ 33: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "ref-variation" 33: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 33: Test timeout computed to be: 1500 -33: ./have-access.sh: 6: vdb-config: not found +33: ./have-access.sh: line 6: vdb-config: command not found 33: no access to repository, skipping ref-variation test... 5/187 Test #33: Ref-Variation-1.0 ................................. Passed 0.00 sec test 34 @@ -6987,7 +7023,7 @@ 34: Test command: /usr/bin/sh "./have-access.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "var-expand" 34: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/ref-variation/test 34: Test timeout computed to be: 1500 -34: ./have-access.sh: 6: vdb-config: not found +34: ./have-access.sh: line 6: vdb-config: command not found 34: no access to repository, skipping var-expand test... 6/187 Test #34: Var-Expand-1.0 .................................... Passed 0.00 sec test 35 @@ -7007,7 +7043,7 @@ 35: SearchSmithWaterman_Coords_NotSupported (0 s) 35: 35: *** No errors detected (0 s total) - 7/187 Test #35: SearchBlockWhiteBox ............................... Passed 0.00 sec + 7/187 Test #35: SearchBlockWhiteBox ............................... Passed 0.01 sec test 38 Start 38: SraSearch-1.0-h @@ -7015,7 +7051,7 @@ 38: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 38: Test timeout computed to be: 1500 38: running test case 1.0-h... passed - 8/187 Test #38: SraSearch-1.0-h ................................... Passed 0.13 sec + 8/187 Test #38: SraSearch-1.0-h ................................... Passed 0.20 sec test 39 Start 39: SraSearch-1.1-help @@ -7023,7 +7059,7 @@ 39: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 39: Test timeout computed to be: 1500 39: running test case 1.1-help... passed - 9/187 Test #39: SraSearch-1.1-help ................................ Passed 0.09 sec + 9/187 Test #39: SraSearch-1.1-help ................................ Passed 0.10 sec test 40 Start 40: SraSearch-1.2-V @@ -7047,7 +7083,7 @@ 42: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 42: Test timeout computed to be: 1500 42: running test case 2.0-no-args... passed - 12/187 Test #42: SraSearch-2.0-no-args ............................. Passed 0.39 sec + 12/187 Test #42: SraSearch-2.0-no-args ............................. Passed 0.84 sec test 43 Start 43: SraSearch-2.1-no-run @@ -7055,7 +7091,7 @@ 43: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 43: Test timeout computed to be: 1500 43: running test case 2.1-no-run... passed - 13/187 Test #43: SraSearch-2.1-no-run .............................. Passed 0.75 sec + 13/187 Test #43: SraSearch-2.1-no-run .............................. Passed 0.14 sec test 44 Start 44: SraSearch-2.2-missing-algorithm @@ -7063,7 +7099,7 @@ 44: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 44: Test timeout computed to be: 1500 44: running test case 2.2-missing-algorithm... passed - 14/187 Test #44: SraSearch-2.2-missing-algorithm ................... Passed 0.45 sec + 14/187 Test #44: SraSearch-2.2-missing-algorithm ................... Passed 0.04 sec test 45 Start 45: SraSearch-2.3-bad-algorithm @@ -7071,7 +7107,7 @@ 45: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 45: Test timeout computed to be: 1500 45: running test case 2.3-bad-algorithm... passed - 15/187 Test #45: SraSearch-2.3-bad-algorithm ....................... Passed 0.60 sec + 15/187 Test #45: SraSearch-2.3-bad-algorithm ....................... Passed 0.04 sec test 61 Start 61: SraSearch-5.1-run-not-nucstrstr-with-expression @@ -7079,7 +7115,7 @@ 61: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 61: Test timeout computed to be: 1500 61: running test case 5.1-run-not-nucstrstr-with-expression... passed - 16/187 Test #61: SraSearch-5.1-run-not-nucstrstr-with-expression ... Passed 0.43 sec + 16/187 Test #61: SraSearch-5.1-run-not-nucstrstr-with-expression ... Passed 0.04 sec test 62 Start 62: SraSearch-6.0.1-imperfect-match-no-arg @@ -7087,7 +7123,7 @@ 62: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 62: Test timeout computed to be: 1500 62: running test case 6.0.1-imperfect-match-no-arg... passed - 17/187 Test #62: SraSearch-6.0.1-imperfect-match-no-arg ............ Passed 0.14 sec + 17/187 Test #62: SraSearch-6.0.1-imperfect-match-no-arg ............ Passed 0.02 sec test 63 Start 63: SraSearch-6.0.2-imperfect-match-bad-arg @@ -7095,7 +7131,7 @@ 63: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 63: Test timeout computed to be: 1500 63: running test case 6.0.2-imperfect-match-bad-arg... passed - 18/187 Test #63: SraSearch-6.0.2-imperfect-match-bad-arg ........... Passed 0.34 sec + 18/187 Test #63: SraSearch-6.0.2-imperfect-match-bad-arg ........... Passed 0.03 sec test 64 Start 64: SraSearch-6.0.3-imperfect-match-default @@ -7103,7 +7139,7 @@ 64: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 64: Test timeout computed to be: 1500 64: running test case 6.0.3-imperfect-match-default... passed - 19/187 Test #64: SraSearch-6.0.3-imperfect-match-default ........... Passed 0.46 sec + 19/187 Test #64: SraSearch-6.0.3-imperfect-match-default ........... Passed 0.02 sec test 65 Start 65: SraSearch-6.1-imperfect-match-fgrep-standard @@ -7111,7 +7147,7 @@ 65: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 65: Test timeout computed to be: 1500 65: running test case 6.1-imperfect-match-fgrep-standard... passed - 20/187 Test #65: SraSearch-6.1-imperfect-match-fgrep-standard ...... Passed 0.56 sec + 20/187 Test #65: SraSearch-6.1-imperfect-match-fgrep-standard ...... Passed 0.02 sec test 66 Start 66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore @@ -7119,7 +7155,7 @@ 66: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 66: Test timeout computed to be: 1500 66: running test case 6.2-imperfect-match-fgrep-boyer-moore... passed - 21/187 Test #66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore ... Passed 0.04 sec + 21/187 Test #66: SraSearch-6.2-imperfect-match-fgrep-boyer-moore ... Passed 0.02 sec test 67 Start 67: SraSearch-6.3-imperfect-match-fgrep-aho @@ -7135,7 +7171,7 @@ 72: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 72: Test timeout computed to be: 1500 72: running test case 6.8-imperfect-match-nucstrstr... passed - 23/187 Test #72: SraSearch-6.8-imperfect-match-nucstrstr ........... Passed 0.01 sec + 23/187 Test #72: SraSearch-6.8-imperfect-match-nucstrstr ........... Passed 0.02 sec test 74 Start 74: SraSearch-7.0.1-threads-no-arg @@ -7143,7 +7179,7 @@ 74: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 74: Test timeout computed to be: 1500 74: running test case 7.0.1-threads-no-arg... passed - 24/187 Test #74: SraSearch-7.0.1-threads-no-arg .................... Passed 0.02 sec + 24/187 Test #74: SraSearch-7.0.1-threads-no-arg .................... Passed 0.04 sec test 75 Start 75: SraSearch-7.0.2-threads-bad-arg @@ -7151,7 +7187,7 @@ 75: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 75: Test timeout computed to be: 1500 75: running test case 7.0.2-threads-bad-arg... passed - 25/187 Test #75: SraSearch-7.0.2-threads-bad-arg ................... Passed 0.02 sec + 25/187 Test #75: SraSearch-7.0.2-threads-bad-arg ................... Passed 0.04 sec test 80 Start 80: SlowTest_SraSearch-8.0-nothing-found @@ -7159,7 +7195,7 @@ 80: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 80: Test timeout computed to be: 1500 80: running test case 8.0-nothing-found... passed - 26/187 Test #80: SlowTest_SraSearch-8.0-nothing-found .............. Passed 1.05 sec + 26/187 Test #80: SlowTest_SraSearch-8.0-nothing-found .............. Passed 1.08 sec test 84 Start 84: SraSearch-9.3-reference-expression @@ -7167,7 +7203,7 @@ 84: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/external/sra-search/test 84: Test timeout computed to be: 1500 84: running test case 9.3-reference-expression... passed - 27/187 Test #84: SraSearch-9.3-reference-expression ................ Passed 0.29 sec + 27/187 Test #84: SraSearch-9.3-reference-expression ................ Passed 0.04 sec test 86 Start 86: GeneralLoaderWhiteBox @@ -7238,7 +7274,7 @@ 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: -86: *** No errors detected (2 s total) +86: *** No errors detected (0 s total) 86: Packed protocol: Running 62 test cases... 86: EmptyInput (0 s) 86: ShortInput (0 s) @@ -7303,22 +7339,22 @@ 86: ProgressMessage (0 s) 86: TargetOverride (0 s) 86: -86: *** No errors detected (3 s total) - 28/187 Test #86: GeneralLoaderWhiteBox ............................. Passed 6.05 sec +86: *** No errors detected (0 s total) + 28/187 Test #86: GeneralLoaderWhiteBox ............................. Passed 0.81 sec test 87 Start 87: GWDumper 87: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/test-gw-dumper 87: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/tools/loaders/general-loader/test 87: Test timeout computed to be: 1500 - 29/187 Test #87: GWDumper .......................................... Passed 0.00 sec + 29/187 Test #87: GWDumper .......................................... Passed 0.01 sec test 88 Start 88: makeinputs 88: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/makeinputs 88: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test 88: Test timeout computed to be: 1500 - 30/187 Test #88: makeinputs ........................................ Passed 0.00 sec + 30/187 Test #88: makeinputs ........................................ Passed 0.01 sec test 89 Start 89: GeneralLoader-1.0-Basic-Unpacked @@ -7330,7 +7366,7 @@ 89: cat input/1.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/load.stderr 89: Load succeeded, dumping and matching stdout 89: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1/dump.stderr - 31/187 Test #89: GeneralLoader-1.0-Basic-Unpacked .................. Passed 0.47 sec + 31/187 Test #89: GeneralLoader-1.0-Basic-Unpacked .................. Passed 0.44 sec test 90 Start 90: GeneralLoader-1.1-Basic-Packed @@ -7342,7 +7378,7 @@ 90: cat input/1packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/load.stderr 90: Load succeeded, dumping and matching stdout 90: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1packed/dump.stderr - 32/187 Test #90: GeneralLoader-1.1-Basic-Packed .................... Passed 0.30 sec + 32/187 Test #90: GeneralLoader-1.1-Basic-Packed .................... Passed 0.45 sec test 91 Start 91: GeneralLoader-1.2-TargetDbOverride @@ -7354,7 +7390,7 @@ 91: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb --target actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 91: Load succeeded, dumping and matching stdout 91: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr - 33/187 Test #91: GeneralLoader-1.2-TargetDbOverride ................ Passed 0.31 sec + 33/187 Test #91: GeneralLoader-1.2-TargetDbOverride ................ Passed 0.70 sec test 92 Start 92: GeneralLoader-1.3-TargetDbOverrideShorthand @@ -7366,7 +7402,7 @@ 92: cat input/1override.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -T actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/load.stderr 92: Load succeeded, dumping and matching stdout 92: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/1override/dump.stderr - 34/187 Test #92: GeneralLoader-1.3-TargetDbOverrideShorthand ....... Passed 0.35 sec + 34/187 Test #92: GeneralLoader-1.3-TargetDbOverrideShorthand ....... Passed 1.75 sec test 93 Start 93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked @@ -7377,7 +7413,7 @@ 93: running test case 2 93: cat input/2.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2/load.stderr 93: Load failed as expected, matching stderr - 35/187 Test #93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked ...... Passed 0.18 sec + 35/187 Test #93: GeneralLoader-2.0-ErrorMessageEvent-Unpacked ...... Passed 0.68 sec test 94 Start 94: GeneralLoader-2.1-ErrorMessageEvent-Packed @@ -7388,7 +7424,7 @@ 94: running test case 2packed 94: cat input/2packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb -L=err 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/2packed/load.stderr 94: Load failed as expected, matching stderr - 36/187 Test #94: GeneralLoader-2.1-ErrorMessageEvent-Packed ........ Passed 0.42 sec + 36/187 Test #94: GeneralLoader-2.1-ErrorMessageEvent-Packed ........ Passed 0.98 sec test 95 Start 95: GeneralLoader-3.0-EmptyDefaultValues-Unpacked @@ -7412,7 +7448,7 @@ 96: cat input/3.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/load.stderr 96: Load succeeded, dumping and matching stdout 96: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/3/dump.stderr - 38/187 Test #96: GeneralLoader-3.1-EmptyDefaultValues-Packed ....... Passed 0.52 sec + 38/187 Test #96: GeneralLoader-3.1-EmptyDefaultValues-Packed ....... Passed 0.46 sec test 97 Start 97: GeneralLoader-4.0-MoveAheadEvent-Unpacked @@ -7424,7 +7460,7 @@ 97: cat input/4.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/load.stderr 97: Load succeeded, dumping and matching stdout 97: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4/dump.stderr - 39/187 Test #97: GeneralLoader-4.0-MoveAheadEvent-Unpacked ......... Passed 0.32 sec + 39/187 Test #97: GeneralLoader-4.0-MoveAheadEvent-Unpacked ......... Passed 0.46 sec test 98 Start 98: GeneralLoader-4.1-MoveAheadEvent-Packed @@ -7436,7 +7472,7 @@ 98: cat input/4packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/load.stderr 98: Load succeeded, dumping and matching stdout 98: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/4packed/dump.stderr - 40/187 Test #98: GeneralLoader-4.1-MoveAheadEvent-Packed ........... Passed 0.49 sec + 40/187 Test #98: GeneralLoader-4.1-MoveAheadEvent-Packed ........... Passed 0.46 sec test 99 Start 99: GeneralLoader-5.0-IntegerConversion @@ -7448,7 +7484,7 @@ 99: cat input/5packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/load.stderr 99: Load succeeded, dumping and matching stdout 99: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/db 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/5packed/dump.stderr - 41/187 Test #99: GeneralLoader-5.0-IntegerConversion ............... Passed 0.35 sec + 41/187 Test #99: GeneralLoader-5.0-IntegerConversion ............... Passed 0.46 sec test 100 Start 100: GeneralLoader-6.0-SoftwareName-Unpacked @@ -7460,7 +7496,7 @@ 100: cat input/6.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/load.stderr 100: Load succeeded, dumping and matching stdout 100: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6/dump.stderr - 42/187 Test #100: GeneralLoader-6.0-SoftwareName-Unpacked ........... Passed 0.18 sec + 42/187 Test #100: GeneralLoader-6.0-SoftwareName-Unpacked ........... Passed 0.30 sec test 101 Start 101: GeneralLoader-6.1-SoftwareName-Packed @@ -7472,14 +7508,14 @@ 101: cat input/6packed.gl | /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/general-loader -L=info -I/usr/include/ncbi-vdb 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/load.stderr 101: Load succeeded, dumping and matching stdout 101: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/kdbmeta /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/db SOFTWARE/formatter 1>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stdout 2>/build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/actual/6packed/dump.stderr - 43/187 Test #101: GeneralLoader-6.1-SoftwareName-Packed ............. Passed 0.40 sec + 43/187 Test #101: GeneralLoader-6.1-SoftwareName-Packed ............. Passed 0.26 sec test 102 Start 102: bio-end-makeinputs 102: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/bio-end-makeinputs 102: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 102: Test timeout computed to be: 1500 - 44/187 Test #102: bio-end-makeinputs ................................ Passed 0.00 sec + 44/187 Test #102: bio-end-makeinputs ................................ Passed 0.01 sec test 103 Start 103: BioEnd-Excl-1 @@ -7487,7 +7523,7 @@ 103: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 103: Test timeout computed to be: 1500 103: running test bio-end:excl-1 - 45/187 Test #103: BioEnd-Excl-1 ..................................... Passed 0.23 sec + 45/187 Test #103: BioEnd-Excl-1 ..................................... Passed 0.26 sec test 104 Start 104: BioEnd-Excl-2 @@ -7495,7 +7531,7 @@ 104: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 104: Test timeout computed to be: 1500 104: running test bio-end:excl-2 - 46/187 Test #104: BioEnd-Excl-2 ..................................... Passed 0.27 sec + 46/187 Test #104: BioEnd-Excl-2 ..................................... Passed 0.23 sec test 105 Start 105: BioEnd-Excl-3 @@ -7503,7 +7539,7 @@ 105: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 105: Test timeout computed to be: 1500 105: running test bio-end:excl-3 - 47/187 Test #105: BioEnd-Excl-3 ..................................... Passed 0.14 sec + 47/187 Test #105: BioEnd-Excl-3 ..................................... Passed 0.23 sec test 106 Start 106: BioEnd-Excl-4 @@ -7511,7 +7547,7 @@ 106: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 106: Test timeout computed to be: 1500 106: running test bio-end:excl-4 - 48/187 Test #106: BioEnd-Excl-4 ..................................... Passed 0.14 sec + 48/187 Test #106: BioEnd-Excl-4 ..................................... Passed 0.23 sec test 107 Start 107: BioEnd-Incl-1 @@ -7519,7 +7555,7 @@ 107: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 107: Test timeout computed to be: 1500 107: running test bio-end:incl-1 - 49/187 Test #107: BioEnd-Incl-1 ..................................... Passed 0.15 sec + 49/187 Test #107: BioEnd-Incl-1 ..................................... Passed 0.24 sec test 108 Start 108: IdxText-CI-1 @@ -7527,7 +7563,7 @@ 108: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 108: Test timeout computed to be: 1500 108: running test bio-end:excl-1 - 50/187 Test #108: IdxText-CI-1 ...................................... Passed 0.14 sec + 50/187 Test #108: IdxText-CI-1 ...................................... Passed 0.26 sec test 109 Start 109: idx-text-makeinputs @@ -7542,7 +7578,7 @@ 110: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 110: Test timeout computed to be: 1500 110: running test idx-text:ci-1 - 52/187 Test #110: IdxText-ci-1 ...................................... Passed 0.15 sec + 52/187 Test #110: IdxText-ci-1 ...................................... Passed 0.25 sec test 111 Start 111: IdxText-ci-2 @@ -7550,7 +7586,7 @@ 111: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 111: Test timeout computed to be: 1500 111: running test idx-text:ci-2 - 53/187 Test #111: IdxText-ci-2 ...................................... Passed 0.14 sec + 53/187 Test #111: IdxText-ci-2 ...................................... Passed 0.22 sec test 112 Start 112: IdxText-ci-3 @@ -7558,7 +7594,7 @@ 112: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 112: Test timeout computed to be: 1500 112: running test idx-text:ci-3 - 54/187 Test #112: IdxText-ci-3 ...................................... Passed 0.15 sec + 54/187 Test #112: IdxText-ci-3 ...................................... Passed 0.26 sec test 113 Start 113: IdxText-ci-4 @@ -7566,7 +7602,7 @@ 113: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 113: Test timeout computed to be: 1500 113: running test idx-text:ci-4 - 55/187 Test #113: IdxText-ci-4 ...................................... Passed 0.15 sec + 55/187 Test #113: IdxText-ci-4 ...................................... Passed 0.23 sec test 114 Start 114: IdxText-ci-5 @@ -7574,7 +7610,7 @@ 114: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 114: Test timeout computed to be: 1500 114: running test idx-text:ci-5 - 56/187 Test #114: IdxText-ci-5 ...................................... Passed 0.11 sec + 56/187 Test #114: IdxText-ci-5 ...................................... Passed 0.17 sec test 115 Start 115: IdxText-cs-1 @@ -7582,7 +7618,7 @@ 115: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 115: Test timeout computed to be: 1500 115: running test idx-text:cs-1 - 57/187 Test #115: IdxText-cs-1 ...................................... Passed 0.15 sec + 57/187 Test #115: IdxText-cs-1 ...................................... Passed 0.36 sec test 116 Start 116: IdxText-cs-2 @@ -7590,7 +7626,7 @@ 116: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 116: Test timeout computed to be: 1500 116: running test idx-text:cs-2 - 58/187 Test #116: IdxText-cs-2 ...................................... Passed 0.14 sec + 58/187 Test #116: IdxText-cs-2 ...................................... Passed 0.25 sec test 117 Start 117: IdxText-cs-3 @@ -7598,7 +7634,7 @@ 117: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/tools/loaders/general-loader/test/vschema 117: Test timeout computed to be: 1500 117: running test idx-text:cs-3 - 59/187 Test #117: IdxText-cs-3 ...................................... Passed 0.10 sec + 59/187 Test #117: IdxText-cs-3 ...................................... Passed 0.18 sec test 118 Start 118: PileupStats-Version @@ -7644,8 +7680,7 @@ 120: 120: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 120: -120: /usr/bin/sh: 1: [: 3: unexpected operator - 62/187 Test #120: PileupStats-NoArgs ................................ Passed 0.00 sec + 62/187 Test #120: PileupStats-NoArgs ................................ Passed 0.01 sec test 121 Start 121: PileupStats-IgnoreArgs-L @@ -7676,8 +7711,7 @@ 121: 121: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 121: -121: /usr/bin/sh: 1: [: 3: unexpected operator - 63/187 Test #121: PileupStats-IgnoreArgs-L .......................... Passed 0.00 sec + 63/187 Test #121: PileupStats-IgnoreArgs-L .......................... Passed 0.01 sec test 122 Start 122: PileupStats-IgnoreArgs-z @@ -7708,8 +7742,7 @@ 122: 122: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 122: -122: /usr/bin/sh: 1: [: 3: unexpected operator - 64/187 Test #122: PileupStats-IgnoreArgs-z .......................... Passed 0.00 sec + 64/187 Test #122: PileupStats-IgnoreArgs-z .......................... Passed 0.01 sec test 123 Start 123: PileupStats-IgnoreArgs-loglevel @@ -7740,8 +7773,7 @@ 123: 123: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 123: -123: /usr/bin/sh: 1: [: 3: unexpected operator - 65/187 Test #123: PileupStats-IgnoreArgs-loglevel ................... Passed 0.00 sec + 65/187 Test #123: PileupStats-IgnoreArgs-loglevel ................... Passed 0.01 sec test 124 Start 124: PileupStats-IgnoreArgs-xmllog @@ -7772,8 +7804,7 @@ 124: 124: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 124: -124: /usr/bin/sh: 1: [: 3: unexpected operator - 66/187 Test #124: PileupStats-IgnoreArgs-xmllog ..................... Passed 0.00 sec + 66/187 Test #124: PileupStats-IgnoreArgs-xmllog ..................... Passed 0.01 sec test 125 Start 125: PileupStats-IgnoreArgs-xmllogfd @@ -7804,8 +7835,7 @@ 125: 125: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/pileup-stats : 3.0.9 125: -125: /usr/bin/sh: 1: [: 3: unexpected operator - 67/187 Test #125: PileupStats-IgnoreArgs-xmllogfd ................... Passed 0.00 sec + 67/187 Test #125: PileupStats-IgnoreArgs-xmllogfd ................... Passed 0.01 sec test 126 Start 126: test-vdb @@ -7830,7 +7860,7 @@ 126: Manager_OpenTable_Good (0 s) 126: Manager_PathType_Table (0 s) 126: Manager_PathType_Database (0 s) -126: Manager_PathType_Invalid (0 s) +126: Manager_PathType_Invalid (1 s) 126: RC 807538648 thrown by ./libs/inc/vdb.hpp:551 126: Database_Table_Bad (0 s) 126: Database_Table_Good (0 s) @@ -7859,7 +7889,7 @@ 126: RawData_value (0 s) 126: 126: *** No errors detected (2 s total) - 68/187 Test #126: test-vdb .......................................... Passed 2.11 sec + 68/187 Test #126: test-vdb .......................................... Passed 2.56 sec test 127 Start 127: Test_NgsJava_lib_load @@ -7868,11 +7898,11 @@ 127: Test timeout computed to be: 1500 127: JUnit version 4.11 127: ......... -127: Time: 0.054 +127: Time: 0.071 127: 127: OK (9 tests) 127: - 69/187 Test #127: Test_NgsJava_lib_load ............................. Passed 0.21 sec + 69/187 Test #127: Test_NgsJava_lib_load ............................. Passed 0.30 sec test 131 Start 131: Test_Align_Info @@ -7912,7 +7942,7 @@ 131: 131: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/align-info : 3.0.9 131: - 70/187 Test #131: Test_Align_Info ................................... Passed 0.00 sec + 70/187 Test #131: Test_Align_Info ................................... Passed 0.01 sec test 132 Start 132: Test_Drivertool_BuildVersion @@ -7957,7 +7987,7 @@ 133: Executable_Yes (0 s) 133: 133: *** No errors detected (0 s total) - 72/187 Test #133: Test_Drivertool_FilePath .......................... Passed 0.00 sec + 72/187 Test #133: Test_Drivertool_FilePath .......................... Passed 0.01 sec test 134 Start 134: Test_Drivertool_CommandLine @@ -7972,7 +8002,7 @@ 135: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_JsonParsing 135: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 135: Test timeout computed to be: 1500 - 74/187 Test #135: Test_Drivertool_JsonParsing ....................... Passed 0.01 sec + 74/187 Test #135: Test_Drivertool_JsonParsing ....................... Passed 0.02 sec test 136 Start 136: Test_Drivertool_SDLResponse @@ -7993,7 +8023,7 @@ 138: Test command: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/Test_Drivertool_UUID 138: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/driver-tool 138: Test timeout computed to be: 1500 - 77/187 Test #138: Test_Drivertool_UUID .............................. Passed 0.40 sec + 77/187 Test #138: Test_Drivertool_UUID .............................. Passed 0.82 sec test 139 Start 139: Test_Drivertool_RunSource @@ -8041,7 +8071,7 @@ 140: ParseArgs (0 s) 140: 140: *** No errors detected (0 s total) - 79/187 Test #140: Test_Drivertool_ToolArgs .......................... Passed 0.00 sec + 79/187 Test #140: Test_Drivertool_ToolArgs .......................... Passed 0.01 sec test 141 Start 141: Test_FasterqDump_Help @@ -8118,7 +8148,7 @@ 141: 141: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 141: - 80/187 Test #141: Test_FasterqDump_Help ............................. Passed 0.00 sec + 80/187 Test #141: Test_FasterqDump_Help ............................. Passed 0.01 sec test 142 Start 142: Test_FasterqDump_NotZeroWithoutParameters @@ -8195,7 +8225,7 @@ 142: 142: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/fasterq-dump : 3.0.9 142: - 81/187 Test #142: Test_FasterqDump_NotZeroWithoutParameters ......... Passed 0.00 sec + 81/187 Test #142: Test_FasterqDump_NotZeroWithoutParameters ......... Passed 0.01 sec test 143 Start 143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id @@ -8208,7 +8238,7 @@ 143: READ_ID1: 10 143: READ_ID2: 10 143: success testing read-id for --fasta-unsorted mode on flat table - 82/187 Test #143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id ... Passed 0.19 sec + 82/187 Test #143: Test_FasterDump_Fasta_unsorted_flat_tbl_read_id ... Passed 0.34 sec test 144 Start 144: Test_FasterDump_Fasta_unsorted_cSRA_read_id @@ -8221,7 +8251,7 @@ 144: READ_ID1: 10 144: READ_ID2: 10 144: success testing read-id for --fasta-unsorted mode on cSRA table - 83/187 Test #144: Test_FasterDump_Fasta_unsorted_cSRA_read_id ....... Passed 0.51 sec + 83/187 Test #144: Test_FasterDump_Fasta_unsorted_cSRA_read_id ....... Passed 1.15 sec test 145 Start 145: Test_Tiny_cSRA @@ -8233,7 +8263,7 @@ 145: spots read : 3 145: reads read : 3 145: reads written : 3 - 84/187 Test #145: Test_Tiny_cSRA .................................... Passed 0.84 sec + 84/187 Test #145: Test_Tiny_cSRA .................................... Passed 1.36 sec test 159 Start 159: SamDumpTestSetup @@ -8248,14 +8278,14 @@ 160: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./verify_omit_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 160: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 160: Test timeout computed to be: 1500 - 86/187 Test #160: Test_sam_dump_verify_omit ......................... Passed 1.09 sec + 86/187 Test #160: Test_sam_dump_verify_omit ......................... Passed 2.51 sec test 161 Start 161: Test_sam_dump_star_quality 161: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump" "./print_star_on_missing_qual.sh" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 161: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/sam-dump 161: Test timeout computed to be: 1500 - 87/187 Test #161: Test_sam_dump_star_quality ........................ Passed 0.84 sec + 87/187 Test #161: Test_sam_dump_star_quality ........................ Passed 1.24 sec test 162 Start 162: Test_Srapath_Check_exit_code @@ -8263,7 +8293,7 @@ 162: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/external/srapath 162: Test timeout computed to be: 1500 162: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/srapath] - 88/187 Test #162: Test_Srapath_Check_exit_code ...................... Passed 0.05 sec + 88/187 Test #162: Test_Srapath_Check_exit_code ...................... Passed 0.08 sec test 164 Start 164: Test_SraPileup_Check_exit_code @@ -8272,7 +8302,7 @@ 164: Test timeout computed to be: 1500 164: WARNING[TEST1] help message is in 'STDOUT' 164: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-pileup] - 89/187 Test #164: Test_SraPileup_Check_exit_code .................... Passed 0.09 sec + 89/187 Test #164: Test_SraPileup_Check_exit_code .................... Passed 0.13 sec test 168 Start 168: Test_VDB_Config_model @@ -8296,7 +8326,7 @@ 168: 168: *** 1 failure detected in test suite "VdbConfStridesModelTestSuite" 168: VDB Copy model test is finished - 90/187 Test #168: Test_VDB_Config_model ............................. Passed 0.36 sec + 90/187 Test #168: Test_VDB_Config_model ............................. Passed 0.09 sec test 169 Start 169: Test_VDB_Config @@ -8305,7 +8335,7 @@ 169: Test timeout computed to be: 1500 169: Testing /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-config... 169: VDB config test is finished - 91/187 Test #169: Test_VDB_Config ................................... Passed 0.17 sec + 91/187 Test #169: Test_VDB_Config ................................... Passed 0.06 sec test 170 Start 170: Test_Vdb_dump_Check_exit_code @@ -8314,7 +8344,7 @@ 170: Test timeout computed to be: 1500 170: WARNING[TEST1] help message is in 'STDOUT' 170: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-dump] - 92/187 Test #170: Test_Vdb_dump_Check_exit_code ..................... Passed 0.09 sec + 92/187 Test #170: Test_Vdb_dump_Check_exit_code ..................... Passed 0.14 sec test 171 Start 171: Test_Vdb_dump_view-spec @@ -8345,7 +8375,7 @@ 171: NestedView (0 s) 171: 171: *** No errors detected (0 s total) - 93/187 Test #171: Test_Vdb_dump_view-spec ........................... Passed 0.05 sec + 93/187 Test #171: Test_Vdb_dump_view-spec ........................... Passed 0.08 sec test 174 Start 174: Test_VdbValidate_Unit @@ -8358,7 +8388,7 @@ 174: is_sorted_unsorted (0 s) 174: 174: *** No errors detected (0 s total) - 94/187 Test #174: Test_VdbValidate_Unit ............................. Passed 0.00 sec + 94/187 Test #174: Test_VdbValidate_Unit ............................. Passed 0.01 sec test 178 Start 178: Test_Sra_Info_Help @@ -8405,7 +8435,7 @@ 178: 178: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info : 3.0.9 178: - 95/187 Test #178: Test_Sra_Info_Help ................................ Passed 0.00 sec + 95/187 Test #178: Test_Sra_Info_Help ................................ Passed 0.01 sec test 179 Start 179: Test_Sra_Info_NoParam @@ -8419,7 +8449,7 @@ 179: 179: Use option --help for more information. 179: - 96/187 Test #179: Test_Sra_Info_NoParam ............................. Passed 0.04 sec + 96/187 Test #179: Test_Sra_Info_NoParam ............................. Passed 0.06 sec test 180 Start 180: Test_Sra_Info_MultipleParams @@ -8433,7 +8463,7 @@ 180: 180: Use option --help for more information. 180: - 97/187 Test #180: Test_Sra_Info_MultipleParams ...................... Passed 0.04 sec + 97/187 Test #180: Test_Sra_Info_MultipleParams ...................... Passed 0.07 sec test 181 Start 181: Test_Sra_Info_Limit_Negative @@ -8443,7 +8473,7 @@ 181: 181: 181: invalid value for --limit(not a positive number) - 98/187 Test #181: Test_Sra_Info_Limit_Negative ...................... Passed 0.04 sec + 98/187 Test #181: Test_Sra_Info_Limit_Negative ...................... Passed 0.07 sec test 182 Start 182: Test_Sra_Info_Limit_Zero @@ -8453,7 +8483,7 @@ 182: 182: 182: invalid value for --limit(not a positive number) - 99/187 Test #182: Test_Sra_Info_Limit_Zero .......................... Passed 0.04 sec + 99/187 Test #182: Test_Sra_Info_Limit_Zero .......................... Passed 0.07 sec test 188 Start 188: Test_Sra_Info_Platform_Format_CSV @@ -8462,7 +8492,7 @@ 188: Test timeout computed to be: 1500 188: running 4.1 188: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f csv 1>./actual/4.1/stdout 2>./actual/4.1/stderr -100/187 Test #188: Test_Sra_Info_Platform_Format_CSV ................. Passed 0.21 sec +100/187 Test #188: Test_Sra_Info_Platform_Format_CSV ................. Passed 0.27 sec test 189 Start 189: Test_Sra_Info_Platform_Format_XML @@ -8480,7 +8510,7 @@ 190: Test timeout computed to be: 1500 190: running 4.3 190: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f json 1>./actual/4.3/stdout 2>./actual/4.3/stderr -102/187 Test #190: Test_Sra_Info_Platform_Format_Json ................ Passed 0.29 sec +102/187 Test #190: Test_Sra_Info_Platform_Format_Json ................ Passed 0.24 sec test 191 Start 191: Test_Sra_Info_Platform_Format_Tab @@ -8489,7 +8519,7 @@ 191: Test timeout computed to be: 1500 191: running 4.4 191: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -P ./input/MultiPlatform.sra -f tab 1>./actual/4.4/stdout 2>./actual/4.4/stderr -103/187 Test #191: Test_Sra_Info_Platform_Format_Tab ................. Passed 0.21 sec +103/187 Test #191: Test_Sra_Info_Platform_Format_Tab ................. Passed 0.27 sec test 192 Start 192: Test_Sra_Info_IsAligned_No @@ -8498,7 +8528,7 @@ 192: Test timeout computed to be: 1500 192: running 5.1 192: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info -A SRR000123 1>./actual/5.1/stdout 2>./actual/5.1/stderr -104/187 Test #192: Test_Sra_Info_IsAligned_No ........................ Passed 1.14 sec +104/187 Test #192: Test_Sra_Info_IsAligned_No ........................ Passed 1.10 sec test 194 Start 194: Test_Sra_Info_Quality_Physical @@ -8507,7 +8537,7 @@ 194: Test timeout computed to be: 1500 194: running 6.1 194: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --quality ./input/MultiPlatform.sra 1>./actual/6.1/stdout 2>./actual/6.1/stderr -105/187 Test #194: Test_Sra_Info_Quality_Physical .................... Passed 0.16 sec +105/187 Test #194: Test_Sra_Info_Quality_Physical .................... Passed 0.27 sec test 208 Start 208: Test_Sra_Info_Schema_Default @@ -8516,7 +8546,7 @@ 208: Test timeout computed to be: 1500 208: running 9.0 208: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra 1>./actual/9.0/stdout 2>./actual/9.0/stderr -106/187 Test #208: Test_Sra_Info_Schema_Default ...................... Passed 0.14 sec +106/187 Test #208: Test_Sra_Info_Schema_Default ...................... Passed 0.22 sec test 209 Start 209: Test_Sra_Info_Schema_Json @@ -8525,7 +8555,7 @@ 209: Test timeout computed to be: 1500 209: running 9.1 209: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fjson 1>./actual/9.1/stdout 2>./actual/9.1/stderr -107/187 Test #209: Test_Sra_Info_Schema_Json ......................... Passed 0.13 sec +107/187 Test #209: Test_Sra_Info_Schema_Json ......................... Passed 0.19 sec test 210 Start 210: Test_Sra_Info_Schema_Xml @@ -8534,7 +8564,7 @@ 210: Test timeout computed to be: 1500 210: running 9.2 210: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info --schema input/MultiPlatform.sra -fxml 1>./actual/9.2/stdout 2>./actual/9.2/stderr -108/187 Test #210: Test_Sra_Info_Schema_Xml .......................... Passed 0.12 sec +108/187 Test #210: Test_Sra_Info_Schema_Xml .......................... Passed 0.22 sec test 211 Start 211: Test_Sra_Info_ACPQS_Default @@ -8543,7 +8573,7 @@ 211: Test timeout computed to be: 1500 211: running 10.0 211: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS 1>./actual/10.0/stdout 2>./actual/10.0/stderr -109/187 Test #211: Test_Sra_Info_ACPQS_Default ....................... Passed 0.52 sec +109/187 Test #211: Test_Sra_Info_ACPQS_Default ....................... Passed 0.59 sec test 212 Start 212: Test_Sra_Info_ACPQS_Json @@ -8552,7 +8582,7 @@ 212: Test timeout computed to be: 1500 212: running 10.1 212: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fjson 1>./actual/10.1/stdout 2>./actual/10.1/stderr -110/187 Test #212: Test_Sra_Info_ACPQS_Json .......................... Passed 0.39 sec +110/187 Test #212: Test_Sra_Info_ACPQS_Json .......................... Passed 0.59 sec test 213 Start 213: Test_Sra_Info_ACPQS_Xml @@ -8561,7 +8591,7 @@ 213: Test timeout computed to be: 1500 213: running 10.2 213: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/sra-info input/MultiPlatform.sra -ACPQS -fxml 1>./actual/10.2/stdout 2>./actual/10.2/stderr -111/187 Test #213: Test_Sra_Info_ACPQS_Xml ........................... Passed 0.36 sec +111/187 Test #213: Test_Sra_Info_ACPQS_Xml ........................... Passed 0.52 sec test 214 Start 214: BamTestSetup @@ -8576,14 +8606,14 @@ 215: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra test.sam" 215: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 215: Test timeout computed to be: 1500 -113/187 Test #215: Test_BamLoader_1 .................................. Passed 0.26 sec +113/187 Test #215: Test_BamLoader_1 .................................. Passed 0.42 sec test 216 Start 216: Test_BamLoader_MinBatchSize 216: Test command: /usr/bin/cmake "-E" "env" "NCBI_SETTINGS=/" "/usr/bin/cmake" "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/bam-load -o out.sra --min-batch-size 999999 test.sam" 216: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/bam-load 216: Test timeout computed to be: 1500 -114/187 Test #216: Test_BamLoader_MinBatchSize ....................... Passed 0.26 sec +114/187 Test #216: Test_BamLoader_MinBatchSize ....................... Passed 0.41 sec test 217 Start 217: Test_BamLoader_MinBatchSize_Bad @@ -8603,8 +8633,8 @@ 217: 217: Use option --help for more information. 217: -217: 2025-12-24T07:58:09 bam-load.3.0.9 err: param incorrect while accessing argument list within application support module - load failed -115/187 Test #217: Test_BamLoader_MinBatchSize_Bad ................... Passed 0.03 sec +217: 2024-11-21T01:44:17 bam-load.3.0.9 err: param incorrect while accessing argument list within application support module - load failed +115/187 Test #217: Test_BamLoader_MinBatchSize_Bad ................... Passed 0.05 sec test 218 Start 218: Test_BamLoader_platform @@ -8754,7 +8784,7 @@ 221: FastqMultiLineSequenceFastq (0 s) 221: 221: *** No errors detected (0 s total) -119/187 Test #221: Test_FastqLoader_WbFastq_dflt ..................... Passed 0.21 sec +119/187 Test #221: Test_FastqLoader_WbFastq_dflt ..................... Passed 0.06 sec test 222 Start 222: Test_FastqLoader_WbFastqParse @@ -8793,18 +8823,18 @@ 223: Test timeout computed to be: 1500 223: Running 14 test cases... 223: CommonWriterOneFile (0 s) -223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' +223: 2024-11-21T01:44:17 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_Error (0 s) -223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 warn: Spot 'HWUSI-EAS499:1:3:9:1822' has already been assigned a spot id +223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 warn: Spot 'HWUSI-EAS499:1:3:9:1822' has already been assigned a spot id 223: CommonWriterDuplicateReadnames_Allowed (0 s) -223: 2025-12-24T07:58:09 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' +223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 err: data inconsistent while reading file within application support module - Duplicate read name 'HWUSI-EAS499:1:3:9:1822' 223: CommonWriterDuplicateReadnames_SameFragment (0 s) 223: CommonWriterDuplicateReadnames_DiffFragment (0 s) -223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen with mate info, now has no mate info -223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 +223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen with mate info, now has no mate info +223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_MatedThenUnmated (0 s) -223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen without mate info, now has mate info -223: 2025-12-24T07:58:10 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 +223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 warn: data inconsistent while reading file within application support module - Spot 'HWUSI-EAS499:1:3:9:1822', which was first seen without mate info, now has mate info +223: 2024-11-21T01:44:18 Test_FastqLoader_WbFastqLoader.1.0.0 err: data invalid while closing table - Too many bad records: records: 2, bad records: 1, bad records percentage: 0.50, allowed percentage: 0.00 223: CommonWriterDuplicateReadnames_UnmatedThenMated (0 s) 223: NoSpotAssemply (0 s) 223: NoSpotAssemply_case2 (0 s) @@ -8814,8 +8844,8 @@ 223: Interleaved_1_longer (0 s) 223: Interleaved_2_longer (0 s) 223: -223: *** No errors detected (1 s total) -121/187 Test #223: Test_FastqLoader_WbFastqLoader .................... Passed 1.95 sec +223: *** No errors detected (2 s total) +121/187 Test #223: Test_FastqLoader_WbFastqLoader .................... Passed 2.72 sec test 224 Start 224: Test_FastqLoader_1.1 @@ -8824,7 +8854,7 @@ 224: Test timeout computed to be: 1500 224: running 1.1 224: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.1.fastq --quality PHRED_33 -o ./actual/1.1/obj 1>./actual/1.1/load.stdout 2>./actual/1.1/load.stderr -122/187 Test #224: Test_FastqLoader_1.1 .............................. Passed 0.61 sec +122/187 Test #224: Test_FastqLoader_1.1 .............................. Passed 0.58 sec test 225 Start 225: Test_FastqLoader_1.2 @@ -8833,7 +8863,7 @@ 225: Test timeout computed to be: 1500 225: running 1.2 225: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.2.fastq --quality PHRED_64 -o ./actual/1.2/obj 1>./actual/1.2/load.stdout 2>./actual/1.2/load.stderr -123/187 Test #225: Test_FastqLoader_1.2 .............................. Passed 1.26 sec +123/187 Test #225: Test_FastqLoader_1.2 .............................. Passed 0.58 sec test 226 Start 226: Test_FastqLoader_1.3 @@ -8842,7 +8872,7 @@ 226: Test timeout computed to be: 1500 226: running 1.3 226: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.3.fastq --quality PHRED_33 -o ./actual/1.3/obj 1>./actual/1.3/load.stdout 2>./actual/1.3/load.stderr -124/187 Test #226: Test_FastqLoader_1.3 .............................. Passed 0.23 sec +124/187 Test #226: Test_FastqLoader_1.3 .............................. Passed 0.31 sec test 227 Start 227: Test_FastqLoader_1.4 @@ -8851,7 +8881,7 @@ 227: Test timeout computed to be: 1500 227: running 1.4 227: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/1.4.fastq --quality LOGODDS -o ./actual/1.4/obj 1>./actual/1.4/load.stdout 2>./actual/1.4/load.stderr -125/187 Test #227: Test_FastqLoader_1.4 .............................. Passed 0.42 sec +125/187 Test #227: Test_FastqLoader_1.4 .............................. Passed 0.81 sec test 228 Start 228: Test_FastqLoader_2.1 @@ -8860,7 +8890,7 @@ 228: Test timeout computed to be: 1500 228: running 2.1 228: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.1.fastq --quality PHRED_33 -o ./actual/2.1/obj 1>./actual/2.1/load.stdout 2>./actual/2.1/load.stderr -126/187 Test #228: Test_FastqLoader_2.1 .............................. Passed 0.45 sec +126/187 Test #228: Test_FastqLoader_2.1 .............................. Passed 0.53 sec test 229 Start 229: Test_FastqLoader_2.5 @@ -8869,7 +8899,7 @@ 229: Test timeout computed to be: 1500 229: running 2.5 229: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.5.fastq --quality PHRED_33 -o ./actual/2.5/obj 1>./actual/2.5/load.stdout 2>./actual/2.5/load.stderr -127/187 Test #229: Test_FastqLoader_2.5 .............................. Passed 0.41 sec +127/187 Test #229: Test_FastqLoader_2.5 .............................. Passed 0.64 sec test 230 Start 230: Test_FastqLoader_2.6 @@ -8878,7 +8908,7 @@ 230: Test timeout computed to be: 1500 230: running 2.6 230: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.6.fastq --quality PHRED_33 -o ./actual/2.6/obj 1>./actual/2.6/load.stdout 2>./actual/2.6/load.stderr -128/187 Test #230: Test_FastqLoader_2.6 .............................. Passed 0.37 sec +128/187 Test #230: Test_FastqLoader_2.6 .............................. Passed 0.61 sec test 231 Start 231: Test_FastqLoader_2.7 @@ -8887,7 +8917,7 @@ 231: Test timeout computed to be: 1500 231: running 2.7 231: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.7.fastq --quality PHRED_33 -o ./actual/2.7/obj 1>./actual/2.7/load.stdout 2>./actual/2.7/load.stderr -129/187 Test #231: Test_FastqLoader_2.7 .............................. Passed 0.21 sec +129/187 Test #231: Test_FastqLoader_2.7 .............................. Passed 0.28 sec test 232 Start 232: Test_FastqLoader_2.7.1 @@ -8896,7 +8926,7 @@ 232: Test timeout computed to be: 1500 232: running 2.7.1 232: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/2.7.fastq --quality PHRED_33 --allow_duplicates -o ./actual/2.7.1/obj 1>./actual/2.7.1/load.stdout 2>./actual/2.7.1/load.stderr -130/187 Test #232: Test_FastqLoader_2.7.1 ............................ Passed 0.37 sec +130/187 Test #232: Test_FastqLoader_2.7.1 ............................ Passed 0.56 sec test 233 Start 233: Test_FastqLoader_2.8.1 @@ -8905,7 +8935,7 @@ 233: Test timeout computed to be: 1500 233: running 2.8.1 233: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.8.1.fastq --quality PHRED_33 -o ./actual/2.8.1/obj 1>./actual/2.8.1/load.stdout 2>./actual/2.8.1/load.stderr -131/187 Test #233: Test_FastqLoader_2.8.1 ............................ Passed 0.40 sec +131/187 Test #233: Test_FastqLoader_2.8.1 ............................ Passed 0.57 sec test 234 Start 234: Test_FastqLoader_2.9 @@ -8914,7 +8944,7 @@ 234: Test timeout computed to be: 1500 234: running 2.9 234: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.fastq --quality PHRED_33 -o ./actual/2.9/obj 1>./actual/2.9/load.stdout 2>./actual/2.9/load.stderr -132/187 Test #234: Test_FastqLoader_2.9 .............................. Passed 0.19 sec +132/187 Test #234: Test_FastqLoader_2.9 .............................. Passed 0.26 sec test 235 Start 235: Test_FastqLoader_2.9.1 @@ -8923,7 +8953,7 @@ 235: Test timeout computed to be: 1500 235: running 2.9.1 235: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/2.9.1.fastq --quality PHRED_33 -o ./actual/2.9.1/obj 1>./actual/2.9.1/load.stdout 2>./actual/2.9.1/load.stderr -133/187 Test #235: Test_FastqLoader_2.9.1 ............................ Passed 0.18 sec +133/187 Test #235: Test_FastqLoader_2.9.1 ............................ Passed 0.27 sec test 236 Start 236: Test_FastqLoader_3.1 @@ -8932,15 +8962,15 @@ 236: Test timeout computed to be: 1500 236: running 3.1 236: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/3.1a.fastq input/3.1b.fastq --quality PHRED_33 -o ./actual/3.1/obj 1>./actual/3.1/load.stdout 2>./actual/3.1/load.stderr -134/187 Test #236: Test_FastqLoader_3.1 .............................. Passed 0.42 sec +134/187 Test #236: Test_FastqLoader_3.1 .............................. Passed 0.58 sec test 237 Start 237: Test_FastqLoader_4.1 237: Test command: /usr/bin/cmake "-E" "env" "VDB_CONFIG=/build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader" "bash" "-c" "/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/4.fastq --tmpfs ./actual -v -o actual/4.1.obj --quality PHRED_33 2>&1 | grep "Path for scratch files: ./actual/key2id"" 237: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader 237: Test timeout computed to be: 1500 -237: 2025-12-24T07:58:17 latf-load.3.0.9: Path for scratch files: ./actual/key2id.2373356.1 -135/187 Test #237: Test_FastqLoader_4.1 .............................. Passed 0.20 sec +237: 2024-11-21T01:44:27 latf-load.3.0.9: Path for scratch files: ./actual/key2id.3922473.1 +135/187 Test #237: Test_FastqLoader_4.1 .............................. Passed 0.32 sec test 238 Start 238: Test_FastqLoader_4.2 @@ -8949,7 +8979,7 @@ 238: Test timeout computed to be: 1500 238: running 4.2 238: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --qual-quant 1:10,10:20,20:30,30:- --quality PHRED_33 -o ./actual/4.2/obj 1>./actual/4.2/load.stdout 2>./actual/4.2/load.stderr -136/187 Test #238: Test_FastqLoader_4.2 .............................. Passed 0.37 sec +136/187 Test #238: Test_FastqLoader_4.2 .............................. Passed 0.55 sec test 239 Start 239: Test_FastqLoader_4.3.1 @@ -8958,7 +8988,7 @@ 239: Test timeout computed to be: 1500 239: running 4.3.1 239: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq --cache-size BIG --quality PHRED_33 -o ./actual/4.3.1/obj 1>./actual/4.3.1/load.stdout 2>./actual/4.3.1/load.stderr -137/187 Test #239: Test_FastqLoader_4.3.1 ............................ Passed 0.05 sec +137/187 Test #239: Test_FastqLoader_4.3.1 ............................ Passed 0.07 sec test 240 Start 240: Test_FastqLoader_4.5 @@ -8967,7 +8997,7 @@ 240: Test timeout computed to be: 1500 240: running 4.5 240: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.fastq --max-err-count 2 --quality PHRED_33 -o ./actual/4.5/obj 1>./actual/4.5/load.stdout 2>./actual/4.5/load.stderr -138/187 Test #240: Test_FastqLoader_4.5 .............................. Passed 0.18 sec +138/187 Test #240: Test_FastqLoader_4.5 .............................. Passed 0.26 sec test 241 Start 241: Test_FastqLoader_4.5.2 @@ -8976,7 +9006,7 @@ 241: Test timeout computed to be: 1500 241: running 4.5.2 241: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/4.5.2.fastq --platform ILLUMINA --quality PHRED_33 --max-err-count 2 -o ./actual/4.5.2/obj 1>./actual/4.5.2/load.stdout 2>./actual/4.5.2/load.stderr -139/187 Test #241: Test_FastqLoader_4.5.2 ............................ Passed 0.18 sec +139/187 Test #241: Test_FastqLoader_4.5.2 ............................ Passed 0.27 sec test 242 Start 242: Test_FastqLoader_4.6 @@ -8985,7 +9015,7 @@ 242: Test timeout computed to be: 1500 242: running 4.6 242: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p LS454 --quality PHRED_33 -o ./actual/4.6/obj 1>./actual/4.6/load.stdout 2>./actual/4.6/load.stderr -140/187 Test #242: Test_FastqLoader_4.6 .............................. Passed 0.38 sec +140/187 Test #242: Test_FastqLoader_4.6 .............................. Passed 0.56 sec test 243 Start 243: Test_FastqLoader_4.6.1 @@ -8994,7 +9024,7 @@ 243: Test timeout computed to be: 1500 243: running 4.6.1 243: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.fastq -p SOMETHINGELSE --quality PHRED_33 -o ./actual/4.6.1/obj 1>./actual/4.6.1/load.stdout 2>./actual/4.6.1/load.stderr -141/187 Test #243: Test_FastqLoader_4.6.1 ............................ Passed 0.05 sec +141/187 Test #243: Test_FastqLoader_4.6.1 ............................ Passed 0.08 sec test 244 Start 244: Test_FastqLoader_4.7 @@ -9003,7 +9033,7 @@ 244: Test timeout computed to be: 1500 244: running 4.7 244: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/not_there --quality PHRED_33 -o ./actual/4.7/obj 1>./actual/4.7/load.stdout 2>./actual/4.7/load.stderr -142/187 Test #244: Test_FastqLoader_4.7 .............................. Passed 0.23 sec +142/187 Test #244: Test_FastqLoader_4.7 .............................. Passed 0.76 sec test 245 Start 245: Test_FastqLoader_4.8 @@ -9012,7 +9042,7 @@ 245: Test timeout computed to be: 1500 245: running 4.8 245: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/4.8.fastq --quality PHRED_33 --no-readnames -o ./actual/4.8/obj 1>./actual/4.8/load.stdout 2>./actual/4.8/load.stderr -143/187 Test #245: Test_FastqLoader_4.8 .............................. Passed 0.41 sec +143/187 Test #245: Test_FastqLoader_4.8 .............................. Passed 0.72 sec test 246 Start 246: Test_FastqLoader_5.0 @@ -9021,7 +9051,7 @@ 246: Test timeout computed to be: 1500 246: running 5.0 246: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/5.0.fastq.gz --quality PHRED_33 -o ./actual/5.0/obj 1>./actual/5.0/load.stdout 2>./actual/5.0/load.stderr -144/187 Test #246: Test_FastqLoader_5.0 .............................. Passed 0.37 sec +144/187 Test #246: Test_FastqLoader_5.0 .............................. Passed 0.70 sec test 247 Start 247: Test_FastqLoader_6.0 @@ -9030,7 +9060,7 @@ 247: Test timeout computed to be: 1500 247: running 6.0 247: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/6.0.fastq --quality PHRED_33 -o ./actual/6.0/obj 1>./actual/6.0/load.stdout 2>./actual/6.0/load.stderr -145/187 Test #247: Test_FastqLoader_6.0 .............................. Passed 0.39 sec +145/187 Test #247: Test_FastqLoader_6.0 .............................. Passed 0.92 sec test 248 Start 248: Test_FastqLoader_7.1 @@ -9039,7 +9069,7 @@ 248: Test timeout computed to be: 1500 248: running 7.1 248: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.1.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.1/obj 1>./actual/7.1/load.stdout 2>./actual/7.1/load.stderr -146/187 Test #248: Test_FastqLoader_7.1 .............................. Passed 0.37 sec +146/187 Test #248: Test_FastqLoader_7.1 .............................. Passed 1.57 sec test 249 Start 249: Test_FastqLoader_7.2 @@ -9048,7 +9078,7 @@ 249: Test timeout computed to be: 1500 249: running 7.2 249: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.2.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.2/obj 1>./actual/7.2/load.stdout 2>./actual/7.2/load.stderr -147/187 Test #249: Test_FastqLoader_7.2 .............................. Passed 0.38 sec +147/187 Test #249: Test_FastqLoader_7.2 .............................. Passed 0.81 sec test 250 Start 250: Test_FastqLoader_7.3 @@ -9057,7 +9087,7 @@ 250: Test timeout computed to be: 1500 250: running 7.3 250: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/7.3.fastq --platform=PACBIO --quality PHRED_33 -o ./actual/7.3/obj 1>./actual/7.3/load.stdout 2>./actual/7.3/load.stderr -148/187 Test #250: Test_FastqLoader_7.3 .............................. Passed 0.47 sec +148/187 Test #250: Test_FastqLoader_7.3 .............................. Passed 1.30 sec test 251 Start 251: Test_FastqLoader_8.0 @@ -9066,7 +9096,7 @@ 251: Test timeout computed to be: 1500 251: running 8.0 251: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.0.fastq --quality PHRED_33 -o ./actual/8.0/obj 1>./actual/8.0/load.stdout 2>./actual/8.0/load.stderr -149/187 Test #251: Test_FastqLoader_8.0 .............................. Passed 0.88 sec +149/187 Test #251: Test_FastqLoader_8.0 .............................. Passed 1.25 sec test 252 Start 252: Test_FastqLoader_8.1 @@ -9075,7 +9105,7 @@ 252: Test timeout computed to be: 1500 252: running 8.1 252: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/8.1.fastq --quality PHRED_33 -o ./actual/8.1/obj 1>./actual/8.1/load.stdout 2>./actual/8.1/load.stderr -150/187 Test #252: Test_FastqLoader_8.1 .............................. Passed 0.19 sec +150/187 Test #252: Test_FastqLoader_8.1 .............................. Passed 0.73 sec test 253 Start 253: Test_FastqLoader_9.0 @@ -9084,7 +9114,7 @@ 253: Test timeout computed to be: 1500 253: running 9.0 253: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/9.0.fastq --quality PHRED_33 -o ./actual/9.0/obj 1>./actual/9.0/load.stdout 2>./actual/9.0/load.stderr -151/187 Test #253: Test_FastqLoader_9.0 .............................. Passed 0.37 sec +151/187 Test #253: Test_FastqLoader_9.0 .............................. Passed 0.58 sec test 254 Start 254: Test_FastqLoader_10.0 @@ -9093,7 +9123,7 @@ 254: Test timeout computed to be: 1500 254: running 10.0 254: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/10.0.fastq --quality PHRED_33 -o ./actual/10.0/obj 1>./actual/10.0/load.stdout 2>./actual/10.0/load.stderr -152/187 Test #254: Test_FastqLoader_10.0 ............................. Passed 0.39 sec +152/187 Test #254: Test_FastqLoader_10.0 ............................. Passed 0.58 sec test 255 Start 255: Test_FastqLoader_11.0 @@ -9102,7 +9132,7 @@ 255: Test timeout computed to be: 1500 255: running 11.0 255: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.0.1.fasta input/11.0.2.fasta --quality PHRED_33 -o ./actual/11.0/obj 1>./actual/11.0/load.stdout 2>./actual/11.0/load.stderr -153/187 Test #255: Test_FastqLoader_11.0 ............................. Passed 0.39 sec +153/187 Test #255: Test_FastqLoader_11.0 ............................. Passed 0.55 sec test 256 Start 256: Test_FastqLoader_11.1 @@ -9111,7 +9141,7 @@ 256: Test timeout computed to be: 1500 256: running 11.1 256: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/11.1.1.fastq input/11.1.2.fastq --quality PHRED_33 -o ./actual/11.1/obj 1>./actual/11.1/load.stdout 2>./actual/11.1/load.stderr -154/187 Test #256: Test_FastqLoader_11.1 ............................. Passed 0.37 sec +154/187 Test #256: Test_FastqLoader_11.1 ............................. Passed 0.55 sec test 257 Start 257: Test_FastqLoader_12.0 @@ -9120,7 +9150,7 @@ 257: Test timeout computed to be: 1500 257: running 12.0 257: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.0.fastq --quality PHRED_33 --ignore-illumina-tags -o ./actual/12.0/obj 1>./actual/12.0/load.stdout 2>./actual/12.0/load.stderr -155/187 Test #257: Test_FastqLoader_12.0 ............................. Passed 0.37 sec +155/187 Test #257: Test_FastqLoader_12.0 ............................. Passed 0.62 sec test 258 Start 258: Test_FastqLoader_12.1 @@ -9129,7 +9159,7 @@ 258: Test timeout computed to be: 1500 258: running 12.1 258: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.1.fastq --quality PHRED_33 -o ./actual/12.1/obj 1>./actual/12.1/load.stdout 2>./actual/12.1/load.stderr -156/187 Test #258: Test_FastqLoader_12.1 ............................. Passed 0.38 sec +156/187 Test #258: Test_FastqLoader_12.1 ............................. Passed 0.57 sec test 259 Start 259: Test_FastqLoader_12.2 @@ -9138,7 +9168,7 @@ 259: Test timeout computed to be: 1500 259: running 12.2 259: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/12.2.fastq --quality PHRED_33 -o ./actual/12.2/obj 1>./actual/12.2/load.stdout 2>./actual/12.2/load.stderr -157/187 Test #259: Test_FastqLoader_12.2 ............................. Passed 0.41 sec +157/187 Test #259: Test_FastqLoader_12.2 ............................. Passed 0.57 sec test 260 Start 260: Test_FastqLoader_13.0 @@ -9147,7 +9177,7 @@ 260: Test timeout computed to be: 1500 260: running 13.0 260: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.0.fastq --quality PHRED_33 -o ./actual/13.0/obj 1>./actual/13.0/load.stdout 2>./actual/13.0/load.stderr -158/187 Test #260: Test_FastqLoader_13.0 ............................. Passed 0.37 sec +158/187 Test #260: Test_FastqLoader_13.0 ............................. Passed 0.59 sec test 261 Start 261: Test_FastqLoader_13.1 @@ -9156,7 +9186,7 @@ 261: Test timeout computed to be: 1500 261: running 13.1 261: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/13.1.fastq --quality PHRED_33 -o ./actual/13.1/obj 1>./actual/13.1/load.stdout 2>./actual/13.1/load.stderr -159/187 Test #261: Test_FastqLoader_13.1 ............................. Passed 0.41 sec +159/187 Test #261: Test_FastqLoader_13.1 ............................. Passed 0.60 sec test 262 Start 262: Test_FastqLoader_14.0 @@ -9165,7 +9195,7 @@ 262: Test timeout computed to be: 1500 262: running 14.0 262: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/14.0.fasta --quality PHRED_33 -o ./actual/14.0/obj 1>./actual/14.0/load.stdout 2>./actual/14.0/load.stderr -160/187 Test #262: Test_FastqLoader_14.0 ............................. Passed 0.36 sec +160/187 Test #262: Test_FastqLoader_14.0 ............................. Passed 0.57 sec test 263 Start 263: Test_FastqLoader_15.0 @@ -9174,7 +9204,7 @@ 263: Test timeout computed to be: 1500 263: running 15.0 263: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load ./input/15.0.fastq --quality PHRED_33 -o ./actual/15.0/obj 1>./actual/15.0/load.stdout 2>./actual/15.0/load.stderr -161/187 Test #263: Test_FastqLoader_15.0 ............................. Passed 0.43 sec +161/187 Test #263: Test_FastqLoader_15.0 ............................. Passed 0.68 sec test 264 Start 264: Test_FastqLoader_16.0 @@ -9183,7 +9213,7 @@ 264: Test timeout computed to be: 1500 264: running 16.0 264: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.0.fasta --quality PHRED_33 --platform=PACBIO -o ./actual/16.0/obj 1>./actual/16.0/load.stdout 2>./actual/16.0/load.stderr -162/187 Test #264: Test_FastqLoader_16.0 ............................. Passed 0.40 sec +162/187 Test #264: Test_FastqLoader_16.0 ............................. Passed 0.64 sec test 265 Start 265: Test_FastqLoader_16.1 @@ -9192,7 +9222,7 @@ 265: Test timeout computed to be: 1500 265: running 16.1 265: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load input/16.1.fastq --quality PHRED_33 --platform=PACBIO -o ./actual/16.1/obj 1>./actual/16.1/load.stdout 2>./actual/16.1/load.stderr -163/187 Test #265: Test_FastqLoader_16.1 ............................. Passed 0.41 sec +163/187 Test #265: Test_FastqLoader_16.1 ............................. Passed 0.73 sec test 266 Start 266: Test_FastqLoader_17.0 @@ -9201,7 +9231,7 @@ 266: Test timeout computed to be: 1500 266: running 17.0 266: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/17.0.fastq --quality PHRED_33 -o ./actual/17.0/obj 1>./actual/17.0/load.stdout 2>./actual/17.0/load.stderr -164/187 Test #266: Test_FastqLoader_17.0 ............................. Passed 0.18 sec +164/187 Test #266: Test_FastqLoader_17.0 ............................. Passed 0.78 sec test 267 Start 267: Test_FastqLoader_18.0 @@ -9210,7 +9240,7 @@ 267: Test timeout computed to be: 1500 267: running 18.0 267: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/latf-load /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/fastq-loader/input/18.0.fastq --quality PHRED_33 -o ./actual/18.0/obj 1>./actual/18.0/load.stdout 2>./actual/18.0/load.stderr -165/187 Test #267: Test_FastqLoader_18.0 ............................. Passed 0.18 sec +165/187 Test #267: Test_FastqLoader_18.0 ............................. Passed 1.27 sec test 269 Start 269: Test_KAPP_qfile @@ -9221,7 +9251,7 @@ 269: queue-size : 1024 269: block-size : 0 269: chunk-size : 1024 -166/187 Test #269: Test_KAPP_qfile ................................... Passed 0.00 sec +166/187 Test #269: Test_KAPP_qfile ................................... Passed 0.01 sec test 270 Start 270: Test_LOADERFILE @@ -9248,7 +9278,7 @@ 271: LoaderMeta_WriteWithVersion (0 s) 271: 271: *** No errors detected (0 s total) -168/187 Test #271: Test_LOADER ....................................... Passed 0.04 sec +168/187 Test #271: Test_LOADER ....................................... Passed 0.06 sec test 272 Start 272: Test_sra_sort_meta_copy @@ -9256,7 +9286,7 @@ 272: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/loaders/sra-sort 272: Test timeout computed to be: 1500 272: Files before.xml and after.xml are identical -169/187 Test #272: Test_sra_sort_meta_copy ........................... Passed 4.85 sec +169/187 Test #272: Test_sra_sort_meta_copy ........................... Passed 5.31 sec test 273 Start 273: Test_Align_samextract @@ -9348,7 +9378,7 @@ 273: Fuzz_Hangs (0 s) 273: 273: *** No errors detected (0 s total) -170/187 Test #273: Test_Align_samextract ............................. Passed 0.58 sec +170/187 Test #273: Test_Align_samextract ............................. Passed 0.84 sec test 275 Start 275: Test_Align_Cache @@ -9356,7 +9386,7 @@ 275: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/align-cache 275: Test timeout computed to be: 1500 275: testing align-cache -171/187 Test #275: Test_Align_Cache .................................. Passed 0.51 sec +171/187 Test #275: Test_Align_Cache .................................. Passed 0.57 sec test 276 Start 276: Test_KFF @@ -9497,7 +9527,7 @@ 277: 277: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/copycat : 3.0.9 277: -173/187 Test #277: Test_Copycat_Help ................................. Passed 0.00 sec +173/187 Test #277: Test_Copycat_Help ................................. Passed 0.01 sec test 278 Start 278: Test_Copycat_Bad_Name @@ -9506,7 +9536,7 @@ 278: Test timeout computed to be: 1500 278: testing copycat expected output for file name with % 278: copycat test file name with % succeeded -174/187 Test #278: Test_Copycat_Bad_Name ............................. Passed 0.05 sec +174/187 Test #278: Test_Copycat_Bad_Name ............................. Passed 0.06 sec test 279 Start 279: Test_Copycat_IdenticalCopy @@ -9515,7 +9545,7 @@ 279: Test timeout computed to be: 1500 279: testing copycat copy 279: copycat copy succeeded -175/187 Test #279: Test_Copycat_IdenticalCopy ........................ Passed 0.05 sec +175/187 Test #279: Test_Copycat_IdenticalCopy ........................ Passed 0.07 sec test 280 Start 280: Test_Copycat_FastqParser @@ -9524,7 +9554,7 @@ 280: Test timeout computed to be: 1500 280: testing copycat fastq parser 280: copycat fastq parser succeeded -176/187 Test #280: Test_Copycat_FastqParser .......................... Passed 0.41 sec +176/187 Test #280: Test_Copycat_FastqParser .......................... Passed 0.19 sec test 281 Start 281: Test_MakeReadFilter @@ -9532,7 +9562,7 @@ 281: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/make-read-filter 281: Test timeout computed to be: 1500 281: /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin /usr/lib/x86_64-linux-gnu /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/test-bin/tmp -177/187 Test #281: Test_MakeReadFilter ............................... Passed 1.10 sec +177/187 Test #281: Test_MakeReadFilter ............................... Passed 0.67 sec test 282 Start 282: Test_Read_filter_redact_Check_exit_code @@ -9548,7 +9578,7 @@ 283: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/read-filter-redact 283: Test timeout computed to be: 1500 283: Testing read-filter-redact from /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin -179/187 Test #283: Test_Read_filter_redact ........................... Passed 0.54 sec +179/187 Test #283: Test_Read_filter_redact ........................... Passed 0.57 sec test 284 Start 284: Test_VDB_Copy_Check_exit_code @@ -9556,16 +9586,16 @@ 284: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 284: Test timeout computed to be: 1500 284: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-copy] -180/187 Test #284: Test_VDB_Copy_Check_exit_code ..................... Passed 0.05 sec +180/187 Test #284: Test_VDB_Copy_Check_exit_code ..................... Passed 0.06 sec test 286 Start 286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession 286: Test command: /usr/bin/bash "-c" "./return_code_on_error.sh /build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin" 286: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/internal/vdb-copy 286: Test timeout computed to be: 1500 -286: 2025-12-24T07:58:42 vdb-copy.3.0.9 int: item not found while copying within virtual database module - the path 'NOT_EXISTING_DIR' cannot be opened as vdb-database or vdb-table +286: 2024-11-21T01:45:03 vdb-copy.3.0.9 int: item not found while copying within virtual database module - the path 'NOT_EXISTING_DIR' cannot be opened as vdb-database or vdb-table 286: SUCCESS: vdb-copy returned 3 if ask to copy a none-existing object. -181/187 Test #286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession .... Passed 0.05 sec +181/187 Test #286: Test_VDB_Copy_Should_Fail_On_Invalid_Accession .... Passed 0.06 sec test 288 Start 288: Test_VDB_Diff_Check_exit_code @@ -9574,7 +9604,7 @@ 288: Test timeout computed to be: 1500 288: WARNING[TEST1] help message is in 'STDOUT' 288: [check-exit-code.py] test passed for [/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu/bin/vdb-diff] -182/187 Test #288: Test_VDB_Diff_Check_exit_code ..................... Passed 0.04 sec +182/187 Test #288: Test_VDB_Diff_Check_exit_code ..................... Passed 0.06 sec test 291 Start 291: Test_qa-stat @@ -9587,39 +9617,39 @@ 291: Testing with two biological read. 291: Testing with one biological and one technical read. 291: Testing with multiple layouts. -183/187 Test #291: Test_qa-stat ...................................... Passed 2.70 sec +183/187 Test #291: Test_qa-stat ...................................... Passed 1.64 sec test 292 Start 292: Test_Scripts_prepare-sra-names 292: Test command: /usr/bin/perl "test-prepare-sra-names.pl" 292: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 292: Test timeout computed to be: 1500 -184/187 Test #292: Test_Scripts_prepare-sra-names .................... Passed 0.11 sec +184/187 Test #292: Test_Scripts_prepare-sra-names .................... Passed 0.17 sec test 293 Start 293: Test_Scripts_fix-sra-names 293: Test command: /usr/bin/perl "test-fix-sra-names.pl" 293: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 293: Test timeout computed to be: 1500 -185/187 Test #293: Test_Scripts_fix-sra-names ........................ Passed 0.05 sec +185/187 Test #293: Test_Scripts_fix-sra-names ........................ Passed 0.08 sec test 294 Start 294: Test_Scripts_prepare-sra-names-py 294: Test command: /usr/bin/perl "test-prepare-sra-names-py.pl" 294: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 294: Test timeout computed to be: 1500 -186/187 Test #294: Test_Scripts_prepare-sra-names-py ................. Passed 0.53 sec +186/187 Test #294: Test_Scripts_prepare-sra-names-py ................. Passed 0.63 sec test 295 Start 295: Test_Scripts_fix-sra-names-py 295: Test command: /usr/bin/perl "test-fix-sra-names-py.pl" 295: Working Directory: /build/reproducible-path/sra-sdk-3.0.9+dfsg/test/scripts 295: Test timeout computed to be: 1500 -187/187 Test #295: Test_Scripts_fix-sra-names-py ..................... Passed 0.26 sec +187/187 Test #295: Test_Scripts_fix-sra-names-py ..................... Passed 0.39 sec 100% tests passed, 0 tests failed out of 187 -Total Test time (real) = 69.14 sec +Total Test time (real) = 81.26 sec make[1]: Leaving directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake @@ -9630,7 +9660,7 @@ debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg' dh_auto_install - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/sra-sdk-3.0.9\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/sra-sdk-3.0.9\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/sra-sdk-3.0.9+dfsg -B/build/reproducible-path/sra-sdk-3.0.9+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -9675,105 +9705,105 @@ -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so.3 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libncbi-ngs.so -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Statistics.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroup.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386 --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386/atomic32.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64 +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/arm64 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/arm64/atomic32.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/fat86 -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/fat86/atomic32.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64 --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/x86_64/atomic32.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386 +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/unix/i386/atomic32.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/stdbool.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/atomic32.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Reference.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/PileupEventItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/StringItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/ReadCollectionItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/ReferenceSequenceItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/defs.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/FragmentItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/ReadItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/PileupItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/Refcount.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/AlignmentItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/StatisticsItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/ErrorMsg.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/ReadGroupItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/adapter/ReferenceItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Alignment.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroup.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Statistics.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroup.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Package.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Reference.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Fragment.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Alignment.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroup.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroupIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/AlignmentIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Package.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEvent.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Fragment.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceSequence.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/FragmentIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadGroupIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/StringRef.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEvent.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Pileup.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadCollection.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Read.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/PileupEventIterator.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReadIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/StringRef.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/ReferenceSequence.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Reference.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ErrorMsg.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Fragment.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Alignment.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReferenceIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Read.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/inl/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/AlignmentIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Package.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEvent.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/stdbool.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/win/atomic32.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/FragmentIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadGroupIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Pileup.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEventIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadCollection.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Read.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadIterator.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/StringRef.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StringItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/VTable.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceSequenceItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/defs.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrorMsg.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/FragmentItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadGroupItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StatisticsItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StringItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/VTable.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrBlock.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupItf.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/AlignmentItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StatisticsItf.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ErrorMsg.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadCollectionItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupItf.h +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/Refcount.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReadGroupItf.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StringItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StatisticsItf.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceSequenceItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PileupEventItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/VTable.h -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/PackageItf.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/ReferenceSequenceItf.h --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StatisticsItf.hpp --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/itf/StringItf.h --- Installing: 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/PileupEventIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ErrorMsg.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/ReadIterator.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Read.hpp +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/include/ngs/Statistics.hpp -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-java.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/examples/AlignTest.java -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/examples/AlignSliceTest.java @@ -9787,70 +9817,70 @@ -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-java/expected.txt -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-examples.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/search.js --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.js --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-3.7.1.min.js --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.css --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/module-search-index.js --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/gov --- 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/build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/legal -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/legal/jqueryUI.md -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/legal/ASSEMBLY_EXCEPTION -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/legal/jquery.md --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/resources --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/resources/glass.png --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/resources/x.png --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/search-page.js --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/serialized-form.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/allpackages-index.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/search.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/overview-summary.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/constant-values.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/overview-tree.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/help-doc.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/type-search-index.js --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/allclasses-index.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/index.html --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/copy.svg --- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/index-all.html +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-3.7.1.min.js +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.js +-- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/javadoc/ngs-doc/script-dir/jquery-ui.min.css -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-doc.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/jar/ngs-src.jar -- Installing: /build/reproducible-path/sra-sdk-3.0.9+dfsg/debian/tmp/usr/share/examples-python/AlignTest.py @@ -10150,235 +10180,235 @@ done ls -l debian/tmp/usr/bin total 66484 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 abi-dump -> abi-dump.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 abi-dump.3 -> abi-dump.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 269416 Dec 23 19:56 abi-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 abi-load -> abi-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 abi-load.3 -> abi-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 641128 Dec 23 19:56 abi-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 align-cache -> align-cache.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 align-cache.3 -> align-cache.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 249136 Dec 23 19:56 align-cache.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 align-info -> align-info.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 align-info.3 -> align-info.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 97336 Dec 23 19:56 align-info.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 bam-load -> bam-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 bam-load.3 -> bam-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 12839712 Dec 23 19:57 bam-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 cache-mgr -> cache-mgr.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 cache-mgr.3 -> cache-mgr.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 124680 Dec 23 19:56 cache-mgr.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 ccextract -> ccextract.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 ccextract.3 -> ccextract.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 272968 Dec 23 19:56 ccextract.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 cg-load -> cg-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 cg-load.3 -> cg-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 657864 Dec 23 19:56 cg-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 check-corrupt -> check-corrupt.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 check-corrupt.3 -> check-corrupt.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 240184 Dec 23 19:56 check-corrupt.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 check-redact -> check-redact.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 check-redact.3 -> check-redact.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 97824 Dec 23 19:56 check-redact.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 copycat -> copycat.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 copycat.3 -> copycat.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 484080 Dec 23 19:56 copycat.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 crc32sum -> crc32sum.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 crc32sum.3 -> crc32sum.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 79384 Dec 23 19:56 crc32sum.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 22 Dec 23 19:58 dump-blob-boundaries -> dump-blob-boundaries.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 26 Dec 23 19:58 dump-blob-boundaries.3 -> dump-blob-boundaries.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 31552 Dec 23 19:56 dump-blob-boundaries.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 fastconv -> fastconv.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fastconv.3 -> fastconv.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 5034112 Dec 23 19:57 fastconv.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fasterq-dump -> fasterq-dump.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 907712 Dec 23 19:56 fasterq-dump-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 fasterq-dump.3 -> fasterq-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fasterq-dump.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 fastq-dump -> fastq-dump.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 349584 Dec 23 19:56 fastq-dump-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 fastq-dump.3 -> fastq-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 fastq-dump.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 fastq-load -> fastq-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 fastq-load.3 -> fastq-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 701176 Dec 23 19:56 fastq-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 general-loader -> general-loader.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 general-loader.3 -> general-loader.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 1362776 Dec 23 19:56 general-loader.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 helicos-load -> helicos-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 helicos-load.3 -> helicos-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 607320 Dec 23 19:56 helicos-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 illumina-dump -> illumina-dump.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 illumina-dump.3 -> illumina-dump.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 255528 Dec 23 19:56 illumina-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 illumina-load -> illumina-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 illumina-load.3 -> illumina-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 657584 Dec 23 19:56 illumina-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 5 Dec 23 19:58 kar -> kar.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 6 Dec 23 19:58 kar+ -> kar+.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 kar+.3 -> kar+.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 237952 Dec 23 19:56 kar+.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 kar+meta -> kar+meta.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 kar+meta.3 -> kar+meta.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 159056 Dec 23 19:56 kar+meta.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 kar.3 -> kar.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 191112 Dec 23 19:56 kar.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 kdb-index -> kdb-index.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 kdb-index.3 -> kdb-index.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 78400 Dec 23 19:56 kdb-index.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 kdbmeta -> kdbmeta.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 kdbmeta.3 -> kdbmeta.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 124344 Dec 23 19:56 kdbmeta.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 latf-load -> latf-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 latf-load.3 -> latf-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 508096 Dec 23 19:56 latf-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 make-read-filter -> make-read-filter.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 22 Dec 23 19:58 make-read-filter.3 -> make-read-filter.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 158736 Dec 23 19:56 make-read-filter.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 7 Dec 23 19:58 md5cp -> md5cp.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 md5cp.3 -> md5cp.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 89664 Dec 23 19:56 md5cp.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 meta-cmp -> meta-cmp.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 meta-cmp.3 -> meta-cmp.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 82024 Dec 23 19:56 meta-cmp.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 meta-copy -> meta-copy.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 meta-copy.3 -> meta-copy.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 81952 Dec 23 19:56 meta-copy.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 meta-repair -> meta-repair.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 meta-repair.3 -> meta-repair.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 135992 Dec 23 19:56 meta-repair.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 ngs-pileup -> ngs-pileup.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 ngs-pileup.3 -> ngs-pileup.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 2547992 Dec 23 19:56 ngs-pileup.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 pacbio-correct -> pacbio-correct.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 pacbio-correct.3 -> pacbio-correct.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 76024 Dec 23 19:56 pacbio-correct.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 pacbio-load -> pacbio-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 pacbio-load.3 -> pacbio-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 476864 Dec 23 19:56 pacbio-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 pacbio-loadxml -> pacbio-loadxml.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 pacbio-loadxml.3 -> pacbio-loadxml.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 590968 Dec 23 19:56 pacbio-loadxml.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 pileup-stats -> pileup-stats.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 pileup-stats.3 -> pileup-stats.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 2779880 Dec 23 19:56 pileup-stats.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 prefetch -> prefetch.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 466784 Dec 23 19:56 prefetch-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 prefetch.3 -> prefetch.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 prefetch.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 11 Dec 23 19:58 rcexplain -> rcexplain.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 rcexplain.3 -> rcexplain.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 67456 Dec 23 19:56 rcexplain.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 read-filter-redact -> read-filter-redact.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 24 Dec 23 19:58 read-filter-redact.3 -> read-filter-redact.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 111192 Dec 23 19:56 read-filter-redact.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 ref-variation -> ref-variation.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 ref-variation.3 -> ref-variation.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 2921088 Dec 23 19:56 ref-variation.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 rowwritetest -> rowwritetest.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 rowwritetest.3 -> rowwritetest.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 88584 Dec 23 19:56 rowwritetest.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sam-dump -> sam-dump.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 834504 Dec 23 19:56 sam-dump-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sam-dump.3 -> sam-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sam-dump.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 samview -> samview.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 samview-util -> samview-util.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 samview-util.3 -> samview-util.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 64128 Dec 23 19:56 samview-util.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 samview.3 -> samview.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 305680 Dec 23 19:56 samview.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 schema-replace -> schema-replace.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 20 Dec 23 19:58 schema-replace.3 -> schema-replace.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 82928 Dec 23 19:56 schema-replace.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sff-dump -> sff-dump.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sff-dump.3 -> sff-dump.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 234424 Dec 23 19:56 sff-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sff-load -> sff-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sff-load.3 -> sff-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 652080 Dec 23 19:56 sff-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sortreadtest -> sortreadtest.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 sortreadtest.3 -> sortreadtest.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 79784 Dec 23 19:56 sortreadtest.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-info -> sra-info.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-info.3 -> sra-info.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 2263624 Dec 23 19:56 sra-info.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 sra-pileup -> sra-pileup.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 443728 Dec 23 19:56 sra-pileup-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 sra-pileup.3 -> sra-pileup.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-pileup.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 sra-search -> sra-search.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 sra-search.3 -> sra-search.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 3981768 Dec 23 19:56 sra-search.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-sort -> sra-sort.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 sra-sort-cg -> sra-sort-cg.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 sra-sort-cg.3 -> sra-sort-cg.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 808808 Dec 23 19:56 sra-sort-cg.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-sort.3 -> sra-sort.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 808840 Dec 23 19:56 sra-sort.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sra-stat -> sra-stat.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sra-stat.3 -> sra-stat.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 338192 Dec 23 19:56 sra-stat.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 srapath -> srapath.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 256120 Dec 23 19:56 srapath-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 srapath.3 -> srapath.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 srapath.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 sratools -> sratools.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 sratools.3 -> sratools.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 5131504 Dec 23 19:56 sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 srf-load -> srf-load.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 srf-load.3 -> srf-load.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 833144 Dec 23 19:56 srf-load.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 15 Dec 23 19:58 test-download -> test-download.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 19 Dec 23 19:58 test-download.3 -> test-download.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 93648 Dec 23 19:56 test-download.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 24 Dec 23 19:58 test-read-write-cursor -> test-read-write-cursor.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 28 Dec 23 19:58 test-read-write-cursor.3 -> test-read-write-cursor.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 75488 Dec 23 19:56 test-read-write-cursor.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 test-sra -> test-sra.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 test-sra.3 -> test-sra.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 343504 Dec 23 19:56 test-sra.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 8 Dec 23 19:58 testld -> testld.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 testld.3 -> testld.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 76472 Dec 23 19:56 testld.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 txt2kdb -> txt2kdb.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 txt2kdb.3 -> txt2kdb.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 83256 Dec 23 19:56 txt2kdb.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 var-expand -> var-expand.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 var-expand.3 -> var-expand.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 1994376 Dec 23 19:56 var-expand.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 vdb-config -> vdb-config.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 vdb-config.3 -> vdb-config.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 2899248 Dec 23 19:56 vdb-config.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-copy -> vdb-copy.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-copy.3 -> vdb-copy.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 329672 Dec 23 19:56 vdb-copy.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-decrypt -> vdb-decrypt.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 vdb-decrypt.3 -> vdb-decrypt.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 121584 Dec 23 19:56 vdb-decrypt.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-diff -> vdb-diff.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-diff.3 -> vdb-diff.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 155224 Dec 23 19:56 vdb-diff.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-dump -> vdb-dump.3 --rwxr-xr-x 1 pbuilder1 pbuilder1 897936 Dec 23 19:56 vdb-dump-orig.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-dump.3 -> vdb-dump.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-dump.3.0.9 -> sratools.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-encrypt -> vdb-encrypt.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 17 Dec 23 19:58 vdb-encrypt.3 -> vdb-encrypt.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 119952 Dec 23 19:56 vdb-encrypt.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 10 Dec 23 19:58 vdb-lock -> vdb-lock.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-lock.3 -> vdb-lock.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 68336 Dec 23 19:56 vdb-lock.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 9 Dec 23 19:58 vdb-sql -> vdb-sql.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 13 Dec 23 19:58 vdb-sql.3 -> vdb-sql.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 5287424 Dec 23 19:57 vdb-sql.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 12 Dec 23 19:58 vdb-unlock -> vdb-unlock.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 16 Dec 23 19:58 vdb-unlock.3 -> vdb-unlock.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 68344 Dec 23 19:56 vdb-unlock.3.0.9 -lrwxrwxrwx 1 pbuilder1 pbuilder1 14 Dec 23 19:58 vdb-validate -> vdb-validate.3 -lrwxrwxrwx 1 pbuilder1 pbuilder1 18 Dec 23 19:58 vdb-validate.3 -> vdb-validate.3.0.9 --rwxr-xr-x 1 pbuilder1 pbuilder1 259912 Dec 23 19:56 vdb-validate.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 abi-dump -> abi-dump.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 abi-dump.3 -> abi-dump.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 269416 Nov 21 15:41 abi-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 abi-load -> abi-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 abi-load.3 -> abi-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 641128 Nov 21 15:42 abi-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 align-cache -> align-cache.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 align-cache.3 -> align-cache.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 249136 Nov 21 15:41 align-cache.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 align-info -> align-info.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 align-info.3 -> align-info.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 97336 Nov 21 15:42 align-info.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 bam-load -> bam-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 bam-load.3 -> bam-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 12839712 Nov 21 15:43 bam-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 cache-mgr -> cache-mgr.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 cache-mgr.3 -> cache-mgr.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 124680 Nov 21 15:42 cache-mgr.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 ccextract -> ccextract.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 ccextract.3 -> ccextract.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 272968 Nov 21 15:41 ccextract.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 cg-load -> cg-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 cg-load.3 -> cg-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 657864 Nov 21 15:42 cg-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 check-corrupt -> check-corrupt.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 check-corrupt.3 -> check-corrupt.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 240184 Nov 21 15:41 check-corrupt.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 check-redact -> check-redact.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 check-redact.3 -> check-redact.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 97824 Nov 21 15:41 check-redact.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 copycat -> copycat.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 copycat.3 -> copycat.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 484080 Nov 21 15:41 copycat.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 crc32sum -> crc32sum.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 crc32sum.3 -> crc32sum.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 79384 Nov 21 15:41 crc32sum.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Nov 21 15:45 dump-blob-boundaries -> dump-blob-boundaries.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 26 Nov 21 15:45 dump-blob-boundaries.3 -> dump-blob-boundaries.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 31552 Nov 21 15:41 dump-blob-boundaries.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 fastconv -> fastconv.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fastconv.3 -> fastconv.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 5034112 Nov 21 15:43 fastconv.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fasterq-dump -> fasterq-dump.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 907712 Nov 21 15:42 fasterq-dump-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 fasterq-dump.3 -> fasterq-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fasterq-dump.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 fastq-dump -> fastq-dump.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 349584 Nov 21 15:41 fastq-dump-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 fastq-dump.3 -> fastq-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 fastq-dump.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 fastq-load -> fastq-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 fastq-load.3 -> fastq-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 701176 Nov 21 15:42 fastq-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 general-loader -> general-loader.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 general-loader.3 -> general-loader.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 1362776 Nov 21 15:42 general-loader.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 helicos-load -> helicos-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 helicos-load.3 -> helicos-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 607320 Nov 21 15:42 helicos-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 illumina-dump -> illumina-dump.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 illumina-dump.3 -> illumina-dump.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 255528 Nov 21 15:41 illumina-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 illumina-load -> illumina-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 illumina-load.3 -> illumina-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 657584 Nov 21 15:42 illumina-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 5 Nov 21 15:45 kar -> kar.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 6 Nov 21 15:45 kar+ -> kar+.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 kar+.3 -> kar+.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 237952 Nov 21 15:41 kar+.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 kar+meta -> kar+meta.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 kar+meta.3 -> kar+meta.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 159056 Nov 21 15:41 kar+meta.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 kar.3 -> kar.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 191112 Nov 21 15:41 kar.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 kdb-index -> kdb-index.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 kdb-index.3 -> kdb-index.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 78400 Nov 21 15:41 kdb-index.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 kdbmeta -> kdbmeta.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 kdbmeta.3 -> kdbmeta.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 124344 Nov 21 15:42 kdbmeta.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 latf-load -> latf-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 latf-load.3 -> latf-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 508096 Nov 21 15:42 latf-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 make-read-filter -> make-read-filter.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 22 Nov 21 15:45 make-read-filter.3 -> make-read-filter.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 158736 Nov 21 15:41 make-read-filter.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 7 Nov 21 15:45 md5cp -> md5cp.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 md5cp.3 -> md5cp.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 89664 Nov 21 15:41 md5cp.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 meta-cmp -> meta-cmp.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 meta-cmp.3 -> meta-cmp.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 82024 Nov 21 15:41 meta-cmp.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 meta-copy -> meta-copy.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 meta-copy.3 -> meta-copy.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 81952 Nov 21 15:41 meta-copy.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 meta-repair -> meta-repair.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 meta-repair.3 -> meta-repair.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 135992 Nov 21 15:41 meta-repair.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 ngs-pileup -> ngs-pileup.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 ngs-pileup.3 -> ngs-pileup.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 2547992 Nov 21 15:42 ngs-pileup.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 pacbio-correct -> pacbio-correct.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 pacbio-correct.3 -> pacbio-correct.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 76024 Nov 21 15:41 pacbio-correct.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 pacbio-load -> pacbio-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 pacbio-load.3 -> pacbio-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 476864 Nov 21 15:42 pacbio-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 pacbio-loadxml -> pacbio-loadxml.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 pacbio-loadxml.3 -> pacbio-loadxml.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 590968 Nov 21 15:42 pacbio-loadxml.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 pileup-stats -> pileup-stats.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 pileup-stats.3 -> pileup-stats.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 2779880 Nov 21 15:42 pileup-stats.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 prefetch -> prefetch.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 466784 Nov 21 15:41 prefetch-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 prefetch.3 -> prefetch.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 prefetch.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 11 Nov 21 15:45 rcexplain -> rcexplain.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 rcexplain.3 -> rcexplain.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 67456 Nov 21 15:42 rcexplain.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 read-filter-redact -> read-filter-redact.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 24 Nov 21 15:45 read-filter-redact.3 -> read-filter-redact.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 111192 Nov 21 15:41 read-filter-redact.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 ref-variation -> ref-variation.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 ref-variation.3 -> ref-variation.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 2921088 Nov 21 15:42 ref-variation.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 rowwritetest -> rowwritetest.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 rowwritetest.3 -> rowwritetest.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 88584 Nov 21 15:41 rowwritetest.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sam-dump -> sam-dump.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 834504 Nov 21 15:42 sam-dump-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sam-dump.3 -> sam-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sam-dump.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 samview -> samview.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 samview-util -> samview-util.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 samview-util.3 -> samview-util.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 64128 Nov 21 15:41 samview-util.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 samview.3 -> samview.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 305680 Nov 21 15:41 samview.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 schema-replace -> schema-replace.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 20 Nov 21 15:45 schema-replace.3 -> schema-replace.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 82928 Nov 21 15:41 schema-replace.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sff-dump -> sff-dump.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sff-dump.3 -> sff-dump.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 234424 Nov 21 15:41 sff-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sff-load -> sff-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sff-load.3 -> sff-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 652080 Nov 21 15:42 sff-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sortreadtest -> sortreadtest.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 sortreadtest.3 -> sortreadtest.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 79784 Nov 21 15:41 sortreadtest.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sra-info -> sra-info.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-info.3 -> sra-info.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 2263624 Nov 21 15:41 sra-info.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 sra-pileup -> sra-pileup.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 443728 Nov 21 15:42 sra-pileup-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 sra-pileup.3 -> sra-pileup.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-pileup.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 sra-search -> sra-search.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 sra-search.3 -> sra-search.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 3981768 Nov 21 15:42 sra-search.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sra-sort -> sra-sort.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 sra-sort-cg -> sra-sort-cg.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 sra-sort-cg.3 -> sra-sort-cg.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 808808 Nov 21 15:41 sra-sort-cg.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-sort.3 -> sra-sort.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 808840 Nov 21 15:41 sra-sort.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sra-stat -> sra-stat.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sra-stat.3 -> sra-stat.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 338192 Nov 21 15:42 sra-stat.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 srapath -> srapath.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 256120 Nov 21 15:42 srapath-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 srapath.3 -> srapath.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 srapath.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 sratools -> sratools.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 sratools.3 -> sratools.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 5131504 Nov 21 15:42 sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 srf-load -> srf-load.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 srf-load.3 -> srf-load.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 833144 Nov 21 15:42 srf-load.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 15 Nov 21 15:45 test-download -> test-download.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 19 Nov 21 15:45 test-download.3 -> test-download.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 93648 Nov 21 15:41 test-download.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 24 Nov 21 15:45 test-read-write-cursor -> test-read-write-cursor.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 28 Nov 21 15:45 test-read-write-cursor.3 -> test-read-write-cursor.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 75488 Nov 21 15:41 test-read-write-cursor.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 test-sra -> test-sra.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 test-sra.3 -> test-sra.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 343504 Nov 21 15:42 test-sra.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 8 Nov 21 15:45 testld -> testld.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 testld.3 -> testld.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 76472 Nov 21 15:41 testld.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 txt2kdb -> txt2kdb.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 txt2kdb.3 -> txt2kdb.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 83256 Nov 21 15:41 txt2kdb.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 var-expand -> var-expand.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 var-expand.3 -> var-expand.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 1994376 Nov 21 15:42 var-expand.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 vdb-config -> vdb-config.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 vdb-config.3 -> vdb-config.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 2899248 Nov 21 15:42 vdb-config.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-copy -> vdb-copy.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-copy.3 -> vdb-copy.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 329672 Nov 21 15:41 vdb-copy.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 vdb-decrypt -> vdb-decrypt.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 vdb-decrypt.3 -> vdb-decrypt.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 121584 Nov 21 15:42 vdb-decrypt.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-diff -> vdb-diff.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-diff.3 -> vdb-diff.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 155224 Nov 21 15:41 vdb-diff.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-dump -> vdb-dump.3 +-rwxr-xr-x 1 pbuilder2 pbuilder2 897936 Nov 21 15:42 vdb-dump-orig.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-dump.3 -> vdb-dump.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-dump.3.0.9 -> sratools.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 vdb-encrypt -> vdb-encrypt.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 17 Nov 21 15:45 vdb-encrypt.3 -> vdb-encrypt.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 119952 Nov 21 15:42 vdb-encrypt.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 10 Nov 21 15:45 vdb-lock -> vdb-lock.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-lock.3 -> vdb-lock.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 68336 Nov 21 15:41 vdb-lock.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 9 Nov 21 15:45 vdb-sql -> vdb-sql.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 13 Nov 21 15:45 vdb-sql.3 -> vdb-sql.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 5287424 Nov 21 15:43 vdb-sql.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 12 Nov 21 15:45 vdb-unlock -> vdb-unlock.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 16 Nov 21 15:45 vdb-unlock.3 -> vdb-unlock.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 68344 Nov 21 15:41 vdb-unlock.3.0.9 +lrwxrwxrwx 1 pbuilder2 pbuilder2 14 Nov 21 15:45 vdb-validate -> vdb-validate.3 +lrwxrwxrwx 1 pbuilder2 pbuilder2 18 Nov 21 15:45 vdb-validate.3 -> vdb-validate.3.0.9 +-rwxr-xr-x 1 pbuilder2 pbuilder2 259912 Nov 21 15:42 vdb-validate.3.0.9 cd debian/tmp/usr/bin && \ for bin in *-orig.* ; do \ base=${bin%-orig.*} && \ @@ -10657,34 +10687,34 @@ dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake -dpkg-shlibdeps: warning: symbol VDatabaseRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol KNamelistCount used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol VDatabaseOpenTableRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol VSchemaRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol xcCursorCreateFailed used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol xcSecondaryAlignmentMissingPrimary used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol xcTypeIncorrect used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol KClientHttpResultRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries -dpkg-shlibdeps: warning: symbol KClientHttpRequestRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol ctx_event used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol KConfigRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol VTableOpenIndexRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: symbol VCursorGetBlob used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol xcTypeIncorrect used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol string_dup used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol string_copy used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol VBlobIdRange used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol KMetadataOpenNodeRead used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries +dpkg-shlibdeps: warning: symbol KRepositoryMgrRelease used by debian/libngs-c++3/usr/lib/x86_64-linux-gnu/libngs-c++.so.3.0.9 found in none of the libraries dpkg-shlibdeps: warning: 133 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake -dpkg-gencontrol: warning: Depends field of package libngs-jni: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package libncbi-ngs-dev: substitution variable ${devlibs:Depends} unused, but is defined +dpkg-gencontrol: warning: Depends field of package libngs-jni: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake -dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb'. -dpkg-deb: building package 'libngs-c++3' in '../libngs-c++3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'sra-toolkit' in '../sra-toolkit_3.0.9+dfsg-7_amd64.deb'. +dpkg-deb: building package 'sra-toolkit-dbgsym' in '../sra-toolkit-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++3-dbgsym' in '../libngs-c++3-dbgsym_3.0.9+dfsg-7_amd64.deb'. -dpkg-deb: building package 'libncbi-ngs3' in '../libncbi-ngs3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-c++-dev' in '../libngs-c++-dev_3.0.9+dfsg-7_amd64.deb'. -dpkg-deb: building package 'libncbi-ngs3-dbgsym' in '../libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb'. +dpkg-deb: building package 'libngs-c++3' in '../libngs-c++3_3.0.9+dfsg-7_amd64.deb'. +dpkg-deb: building package 'libncbi-ngs3' in '../libncbi-ngs3_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libncbi-ngs-dev' in '../libncbi-ngs-dev_3.0.9+dfsg-7_amd64.deb'. -dpkg-deb: building package 'libngs-java' in '../libngs-java_3.0.9+dfsg-7_amd64.deb'. -dpkg-deb: building package 'libngs-jni' in '../libngs-jni_3.0.9+dfsg-7_amd64.deb'. +dpkg-deb: building package 'libncbi-ngs3-dbgsym' in '../libncbi-ngs3-dbgsym_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'libngs-java-doc' in '../libngs-java-doc_3.0.9+dfsg-7_all.deb'. +dpkg-deb: building package 'libngs-jni' in '../libngs-jni_3.0.9+dfsg-7_amd64.deb'. +dpkg-deb: building package 'libngs-java' in '../libngs-java_3.0.9+dfsg-7_amd64.deb'. dpkg-deb: building package 'python3-ngs' in '../python3-ngs_3.0.9+dfsg-7_all.deb'. dpkg-genbuildinfo --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.buildinfo dpkg-genchanges --build=binary -O../sra-sdk_3.0.9+dfsg-7_amd64.changes @@ -10693,12 +10723,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3843499/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/2302652 and its subdirectories -I: Current time: Tue Dec 23 19:59:25 -12 2025 -I: pbuilder-time-stamp: 1766563165 +I: removing directory /srv/workspace/pbuilder/3843499 and its subdirectories +I: Current time: Thu Nov 21 15:46:15 +14 2024 +I: pbuilder-time-stamp: 1732153575 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/sra-sdk_3.0.9+dfsg-7.diff: 94.5% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/amd64/sra-sdk_3.0.9+dfsg-7.diff.gz b2/build.log: 92.8% -- replaced with stdout Compressing the 1st log... b1/build.log: 92.8% -- replaced with stdout Thu Nov 21 01:46:18 UTC 2024 I: diffoscope 283 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_sra-sdk_unstable_amd64_1732153578 + touch /var/log/reproducible-builds/diffoscope_stamp_sra-sdk_unstable_amd64_1732153578 + RESULT=0 + systemd-run '--description=diffoscope on sra-sdk/3.0.9+dfsg-7 in unstable/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_18-23290 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0 --run-session -c jenkins-reproducible-unstable-diffoscope-17397425-b2d3-4be9-a888-735ef8523907 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/dbd-tmp-JlSx4ym ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/sra-sdk_3.0.9+dfsg-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/sra-sdk_3.0.9+dfsg-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/sra-sdk_3.0.9+dfsg-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1/sra-sdk_3.0.9+dfsg-7_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2/sra-sdk_3.0.9+dfsg-7_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_18-23290.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/sra-sdk_3.0.9+dfsg-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/sra-sdk_3.0.9+dfsg-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/sra-sdk_3.0.9+dfsg-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b1/sra-sdk_3.0.9+dfsg-7_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.QFJpoTc0/b2/sra-sdk_3.0.9+dfsg-7_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.560s) 0.560s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.241s) 0.241s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 861ms CPU time consumed: 859ms _ _ ___ _ __ __ _ ___ __| | | __ / __| '__/ _` |_____/ __|/ _` | |/ / \__ \ | | (_| |_____\__ \ (_| | < |___/_| \__,_| |___/\__,_|_|\_\ Thu Nov 21 01:46:19 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Thu Nov 21 01:46:19 UTC 2024 I: sra-sdk from unstable built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2024-11-21 01:46:20] INFO: Starting at 2024-11-21 01:46:20.178205 [2024-11-21 01:46:20] INFO: Generating the pages of 1 package(s) [2024-11-21 01:46:20] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/amd64/sra-sdk didn't produce a buildlog, even though it has been built. [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/sra-sdk_3.0.9+dfsg-7.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/sra-sdk_3.0.9+dfsg-7.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/sra-sdk_3.0.9+dfsg-7.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/sra-sdk_3.0.9+dfsg-7.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/sra-sdk_3.0.9+dfsg-7.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/sra-sdk_3.0.9+dfsg-7.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/sra-sdk_3.0.3+dfsg-9.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/sra-sdk_3.0.3+dfsg-9.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/sra-sdk_3.0.3+dfsg-9.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/sra-sdk_3.0.3+dfsg-9.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/armhf/sra-sdk_3.0.3+dfsg-6~deb12u1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/armhf/sra-sdk_3.0.3+dfsg-6~deb12u1.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/i386/sra-sdk_3.0.3+dfsg-6~deb12u1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/i386/sra-sdk_3.0.3+dfsg-6~deb12u1.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/arm64/sra-sdk_2.10.9+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/arm64/sra-sdk_2.10.9+dfsg-2.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/sra-sdk_2.10.9+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/sra-sdk_2.10.9+dfsg-2.diff.gz is missing [2024-11-21 01:46:21] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/sra-sdk_2.10.9+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/sra-sdk_2.10.9+dfsg-2.diff.gz is missing [2024-11-21 01:46:21] INFO: Finished at 2024-11-21 01:46:21.219438, took: 0:00:01.041237 Thu Nov 21 01:46:21 UTC 2024 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/sra-sdk.html Thu Nov 21 01:46:21 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Nov 21 01:46:21 UTC 2024 I: Submitting 20K b1/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc https://buildinfo.debian.net/1de496835e6cc0e7158b38af0458d91a871f3e08/sra-sdk_3.0.9+dfsg-7_all Thu Nov 21 01:46:23 UTC 2024 I: Submitting 20K b2/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc https://buildinfo.debian.net/553ac538babab6fe308ef3be4c141502a5311e4f/sra-sdk_3.0.9+dfsg-7_all Thu Nov 21 01:46:24 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Nov 21 01:46:24 UTC 2024 I: Done submitting .buildinfo files. Thu Nov 21 01:46:24 UTC 2024 I: Removing signed sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc files: removed './b1/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc' removed './b2/sra-sdk_3.0.9+dfsg-7_amd64.buildinfo.asc' 1732153584 amd64 unstable sra-sdk Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/sra-sdk_3.0.9+dfsg-7.rbuild.log: 92.6% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/amd64/sra-sdk_3.0.9+dfsg-7.rbuild.log.gz [2024-11-21 01:46:24] INFO: Starting at 2024-11-21 01:46:24.941384 [2024-11-21 01:46:25] INFO: Generating the pages of 1 package(s) [2024-11-21 01:46:25] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/sra-sdk_3.0.9+dfsg-7.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/sra-sdk_3.0.9+dfsg-7.diff.gz is missing [2024-11-21 01:46:25] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/armhf/sra-sdk_3.0.9+dfsg-7.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/armhf/sra-sdk_3.0.9+dfsg-7.diff.gz is missing [2024-11-21 01:46:25] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/sra-sdk_3.0.9+dfsg-7.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/sra-sdk_3.0.9+dfsg-7.diff.gz is missing [2024-11-21 01:46:25] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/armhf/sra-sdk_3.0.3+dfsg-9.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/armhf/sra-sdk_3.0.3+dfsg-9.diff.gz is missing [2024-11-21 01:46:25] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/trixie/i386/sra-sdk_3.0.3+dfsg-9.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/trixie/i386/sra-sdk_3.0.3+dfsg-9.diff.gz is missing [2024-11-21 01:46:25] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/armhf/sra-sdk_3.0.3+dfsg-6~deb12u1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/armhf/sra-sdk_3.0.3+dfsg-6~deb12u1.diff.gz is missing [2024-11-21 01:46:26] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/i386/sra-sdk_3.0.3+dfsg-6~deb12u1.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/i386/sra-sdk_3.0.3+dfsg-6~deb12u1.diff.gz is missing [2024-11-21 01:46:26] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/arm64/sra-sdk_2.10.9+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/arm64/sra-sdk_2.10.9+dfsg-2.diff.gz is missing [2024-11-21 01:46:26] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/armhf/sra-sdk_2.10.9+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/armhf/sra-sdk_2.10.9+dfsg-2.diff.gz is missing [2024-11-21 01:46:26] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bullseye/i386/sra-sdk_2.10.9+dfsg-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bullseye/i386/sra-sdk_2.10.9+dfsg-2.diff.gz is missing [2024-11-21 01:46:26] INFO: Finished at 2024-11-21 01:46:26.094339, took: 0:00:01.152960 All cleanup done. Thu Nov 21 01:46:26 UTC 2024 - total duration: 0h 17m 0s. Thu Nov 21 01:46:26 UTC 2024 - reproducible_build.sh stopped running as /tmp/jenkins-script-NnpszhVM, removing. Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 17min 7.156s CPU time consumed: 11.098s